Gene name: SPT4
Reference locus (S288C): YGR063C
Gene biotype: protein_coding
Description: Spt4p/5p (DSIF) transcription elongation factor complex subunit; the Spt4/5 complex binds to ssRNA in a sequence-specific manner, and along with RNAP I and II has multiple roles regulating transcriptional elongation, RNA processing, quality control, and transcription-coupled repair; localizes to kinetochores and heterochromatin, influencing chromosomal dynamics and silencing; required for transcription through long trinucleotide repeats in ORFs and non-protein coding regions
Top 10 interactors (score): RPB9 (0.999); SPT5 (0.999); RPB3 (0.999); RPB2 (0.999); RPB4 (0.999); RPB7 (0.999); ELF1 (0.999); SPT16 (0.999); DST1 (0.999); RPO21 (0.999); SPT6 (0.999); RPB11 (0.997); SPN1 (0.996); RPB5 (0.996); RPB10 (0.996); RPO26 (0.996); CHD1 (0.994); RTF1 (0.993); RPC10 (0.992); LEO1 (0.992)
Homologues (species, bitscore): SUPT4H1 (Homo sapiens, 89.0); Supt4a (Mus musculus, 89.0); supt4h1 (Danio rerio, 89.0); supt4h1 (Xenopus tropicalis, 62.8); spt4 (Drosophila melanogaster, 79.0); spt-4 (Caenorhabditis elegans, 78.2); SPT42 (Arabidopsis thaliana, 67.4)
External links:
Saccharomyces genome database (SGD)
STRING database
BioGRID
UniProt Knowledgebase
Kyoto encyclopedia of genes and genomes (KEGG)
Reactome
UCSC Genome Browser
| strain | assembly | application | macro_region | gene_coord | geneID | rnaID | protID | %id | %cov_exon | status | copyNumber | copyID | nORFs | match_ref_CDS | validORF | missing_startCodon | missing_stopCodon | outOfFrame_stopCodon |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| AKU4011 | GCA_001738255.1 | Sake | Asia | CM005301.1:601209-601517:- | gene-YGR063C_AKU4011 | rna-NM_001181192.3_AKU4011 | cds-NP_011577.3_AKU4011 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000173.1:37469-37777:- | gene-YGR063C_BG1 | rna-NM_001181192.3_BG1 | cds-NP_011577.3_BG1 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005509.1:603496-603804:- | gene-YGR063C_Bruggeman | rna-NM_001181192.3_Bruggeman | cds-NP_011577.3_Bruggeman | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005525.1:601922-602230:- | gene-YGR063C_CAT1 | rna-NM_001181192.3_CAT1 | cds-NP_011577.3_CAT1 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005365.1:602523-602831:- | gene-YGR063C_CBS1585 | rna-NM_001181192.3_CBS1585 | cds-NP_011577.3_CBS1585 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005349.1:603818-604126:- | gene-YGR063C_CBS436 | rna-NM_001181192.3_CBS436 | cds-NP_011577.3_CBS436 | 100.0 | 100.0 | Mismatch | 1 | 1 | 1 | True | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005333.1:595318-595626:- | gene-YGR063C_CBS6412 | rna-NM_001181192.3_CBS6412 | cds-NP_011577.3_CBS6412 | 99.6 | 100.0 | Mismatch | 1 | 1 | 1 | True | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005317.1:599316-599624:- | gene-YGR063C_CBS6413 | rna-NM_001181192.3_CBS6413 | cds-NP_011577.3_CBS6413 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001528.1:617234-617542:- | gene-YGR063C_CENPK1137D | rna-NM_001181192.3_CENPK1137D | cds-NP_011577.3_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005477.1:589452-589760:- | gene-YGR063C_EthanolRed | rna-NM_001181192.3_EthanolRed | cds-NP_011577.3_EthanolRed | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005541.1:592931-593239:- | gene-YGR063C_FaliES1 | rna-NM_001181192.3_FaliES1 | cds-NP_011577.3_FaliES1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000435.1:43877-44185:- | gene-YGR063C_JAY291 | rna-NM_001181192.3_JAY291 | cds-NP_011577.3_JAY291 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005413.1:600128-600436:- | gene-YGR063C_MUCL30387 | rna-NM_001181192.3_MUCL30387 | cds-NP_011577.3_MUCL30387 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005445.1:603528-603836:- | gene-YGR063C_MUCL30388 | rna-NM_001181192.3_MUCL30388 | cds-NP_011577.3_MUCL30388 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005285.1:598360-598668:- | gene-YGR063C_MUCL39482 | rna-NM_001181192.3_MUCL39482 | cds-NP_011577.3_MUCL39482 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005429.1:608153-608461:- | gene-YGR063C_MUCL42920 | rna-NM_001181192.3_MUCL42920 | cds-NP_011577.3_MUCL42920 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011816.1:617516-617824:- | gene-YGR063C_NCIM3186 | rna-NM_001181192.3_NCIM3186 | cds-NP_011577.3_NCIM3186 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005269.1:592538-592846:- | gene-YGR063C_NCYC1407 | rna-NM_001181192.3_NCYC1407 | cds-NP_011577.3_NCYC1407 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994146.1:595782-596090:- | gene-YGR063C_PE2H3 | rna-NM_001181192.3_PE2H3 | cds-NP_011577.3_PE2H3 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999878.1:600889-601197:- | gene-YGR063C_PE2H4 | rna-NM_001181192.3_PE2H4 | cds-NP_011577.3_PE2H4 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001139.9:617516-617824:- | gene-YGR063C_S288C | rna-NM_001181192.3_S288C | cds-NP_011577.3_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000015.1:43981-44289:- | gene-YGR063C_SA1 | rna-NM_001181192.3_SA1 | cds-NP_011577.3_SA1 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005493.1:612269-612577:- | gene-YGR063C_ThermosaccDry | rna-NM_001181192.3_ThermosaccDry | cds-NP_011577.3_ThermosaccDry | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005461.1:709203-709511:- | gene-YGR063C_VR1 | rna-NM_001181192.3_VR1 | cds-NP_011577.3_VR1 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000015.1:67734-68042:- | gene-YGR063C_ZTW1 | rna-NM_001181192.3_ZTW1 | cds-NP_011577.3_ZTW1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047493.1:602703-603011:- | gene-YGR063C_Sparadoxus | rna-NM_001181192.3_Sparadoxus | cds-NP_011577.3_Sparadoxus | 91.5 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |