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SLFNL1 schlafen like 1 [ Homo sapiens (human) ]

Gene ID: 200172, updated on 3-Apr-2024

Summary

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Official Symbol
SLFNL1provided by HGNC
Official Full Name
schlafen like 1provided by HGNC
Primary source
HGNC:HGNC:26313
See related
Ensembl:ENSG00000171790 AllianceGenome:HGNC:26313
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to enable ATP binding activity. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis (RPKM 12.5) and lung (RPKM 0.6) See more
Orthologs
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Genomic context

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Location:
1p34.2
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (41015597..41021725, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (40884961..40891602, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (41481269..41487397, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:41410503-41411002 Neighboring gene UBE2V1 pseudogene 8 Neighboring gene Sharpr-MPRA regulatory region 12776 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 738 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 739 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 740 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 858 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 859 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:41472557-41473756 Neighboring gene CTP synthase 1 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_8011 Neighboring gene SLFNL1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:41492537-41493455 Neighboring gene MPRA-validated peak193 silencer Neighboring gene Scm polycomb group protein homolog 1 Neighboring gene ribosomal protein L23a pseudogene 17 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:41622311-41622500 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 860 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 741 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 742 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 743 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:41715456-41715624 Neighboring gene SCMH1 divergent transcript Neighboring gene ribosomal protein L36a pseudogene 9

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. High-throughput analyses of hnRNP H1 dissects its multi-functional aspect. Uren PJ, et al. RNA Biol, 2016. PMID 26760575, Free PMC Article
  2. The DNA sequence and biological annotation of human chromosome 1. Gregory SG, et al. Nature, 2006 May 18. PMID 16710414
  3. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. Oláh J, et al. J Biol Chem, 2011 Sep 30. PMID 21832049, Free PMC Article
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ23878, MGC43873

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
schlafen-like protein 1
Names
testicular tissue protein Li 173

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001168247.3 → NP_001161719.1  schlafen-like protein 1 isoform 1

    See identical proteins and their annotated locations for NP_001161719.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses two alternate splice sites in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AK292296, AL391730, BC022037
    Consensus CDS
    CCDS460.1
    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Related
    ENSP00000398938.2, ENST00000439569.2
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  2. NM_001300859.2 → NP_001287788.1  schlafen-like protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001287788.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 5' UTR and an alternate splice site in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AK097609, BC022037
    Consensus CDS
    CCDS72766.1
    UniProtKB/TrEMBL
    A0A8I5KYI0
    Related
    ENSP00000361694.1, ENST00000372611.5
    Conserved Domains (1) summary
    pfam04326
    Location:162 → 294
    AlbA_2; Putative DNA-binding domain

  3. NM_001377532.1 → NP_001364461.1  schlafen-like protein 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL391730
    Consensus CDS
    CCDS460.1
    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Related
    ENSP00000352299.1, ENST00000359345.5

  4. NM_001394331.1 → NP_001381260.1  schlafen-like protein 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL391730
    Consensus CDS
    CCDS90925.1
    UniProtKB/TrEMBL
    A0A8I5KYI0
    Related
    ENSP00000361696.2, ENST00000372613.6
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 305
    AlbA_2; Putative DNA-binding domain

  5. NM_144990.4 → NP_659427.3  schlafen-like protein 1 isoform 1

    See identical proteins and their annotated locations for NP_659427.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1). Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AL391730, BC022037, DB046748
    Consensus CDS
    CCDS460.1
    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Related
    ENSP00000304401.8, ENST00000302946.13
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    41015597..41021725 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011540952.3 → XP_011539254.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011539254.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  2. XM_005270598.2 → XP_005270655.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_005270655.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  3. XM_005270599.3 → XP_005270656.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_005270656.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  4. XM_047448773.1 → XP_047304729.1  schlafen-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6

  5. XM_011540951.2 → XP_011539253.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011539253.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Related
    ENSP00000509946.1, ENST00000693284.1
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  6. XM_011540947.1 → XP_011539249.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011539249.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  7. XM_011540949.3 → XP_011539251.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011539251.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  8. XM_011540945.3 → XP_011539247.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011539247.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  9. XM_011540948.3 → XP_011539250.1  schlafen-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011539250.1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6, A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:221 → 353
    AlbA_2; Putative DNA-binding domain

  10. XM_047448766.1 → XP_047304722.1  schlafen-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6

  11. XM_047448765.1 → XP_047304721.1  schlafen-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
    UniProtKB/TrEMBL
    A0A140VJU6

  12. XM_024453869.2 → XP_024309637.1  schlafen-like protein 1 isoform X3

    UniProtKB/TrEMBL
    A0A8I5KYI0
    Conserved Domains (1) summary
    pfam04326
    Location:161 → 293
    AlbA_2; Putative DNA-binding domain

  13. XM_047448778.1 → XP_047304734.1  schlafen-like protein 1 isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    40884961..40891602 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054334974.1 → XP_054190949.1  schlafen-like protein 1 isoform X1

  2. XM_054334969.1 → XP_054190944.1  schlafen-like protein 1 isoform X1

  3. XM_054334971.1 → XP_054190946.1  schlafen-like protein 1 isoform X1

  4. XM_054334975.1 → XP_054190950.1  schlafen-like protein 1 isoform X1

  5. XM_054334972.1 → XP_054190947.1  schlafen-like protein 1 isoform X1

  6. XM_054334970.1 → XP_054190945.1  schlafen-like protein 1 isoform X1

  7. XM_054334973.1 → XP_054190948.1  schlafen-like protein 1 isoform X1

  8. XM_054334968.1 → XP_054190943.1  schlafen-like protein 1 isoform X1

  9. XM_054334977.1 → XP_054190952.1  schlafen-like protein 1 isoform X3

  10. XM_054334976.1 → XP_054190951.1  schlafen-like protein 1 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q499Z3.2 GenPept UniProtKB/Swiss-Prot:Q499Z3

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