General information for g9850.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cysteine desulfurase, mitochondrial.
Parent gene
- The parent gene g9850 is located on chr_1: 5588364..5589828 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g9850 | g9850.t12 | TSS | g9850.t12 | 5586896 | 5586896 |
| chr_1 | g9850 | g9850.t12 | isoform | g9850.t12 | 5587108 | 5588364 |
| chr_1 | g9850 | g9850.t12 | exon | g9850.t12.exon1 | 5587108 | 5588364 |
| chr_1 | g9850 | g9850.t12 | cds | g9850.t12.CDS1 | 5587219 | 5588364 |
| chr_1 | g9850 | g9850.t12 | TTS | g9850.t12 | 5588624 | 5588624 |
Sequences
>g9850.t12 Gene=g9850 Length=1257
AACGAAGGCAAAAACACTAAATTTAGTATCAAAGACGAAACACTTGATGGCAGACCATTA
TATCTTGATGCTCAAGCAACAACACCACTTGATCCGAGAGTACTTGATAAGATGTTGCCA
TATTTAACAAATTATTACGGAAATCCACATTCAAGAACTCACTATTATGGTTGGGAAACT
GAAACTGCTGTTGAAAAAGCACGAAATCAAGTGGCAAAATTAATCGGTGCTGATCCAAAA
GAGATAATTTTCACATCAGGTGCAACCGAATCAAATAATGTCGCAATTAAAGGAGTTGGA
AGATTTTATGCTGAAAAAAAGAAACACATAATCACAACTCAAACGGAACATAAATGTGTA
CTCGATTCATGCAGAGCTTTGGAAGGTGAAGGATTCAAAGTAACTTATATGCCGGTCAAT
AGTAATGGTTTGATTGACATTGAAGCATTAGAAAAAGCAATAACACCAGAAACGTCGCTT
GTGTCAATCATGTCTGTGAATAATGAAATTGGAGTAAGGCAACCAATTGAAGAAATTGGA
AAATTGTGTAGATCAAAGAAAGTCTTTTTCCATACAGATGCAGCTCAAGCTGTTGGAAAA
ATTCCTATAAATGTAAACGAAATGAACATCGATTTGATGTCAATTAGTGGTCATAAAATT
TACGGACCAAAAGGAATTGGTTGCATTTATATTCGTCGCAGACCTCGTGTAAGAATTGAG
GCAATTCAGAGTGGTGGTGGACAAGAGAGAGGAATTCGAAGTGGAACACTTCCTGCGCCG
CTTGTTGTTGGATTAGGAGCAGCATGTGAAATTGCTGAAAAAGAAATGGACTATGATCAT
AAGAGAATTGAATTCTTATCAAAACGATTATTGGATGGAATTTTAGGAAATTTGGAGCAT
GTTGTAAGAAATGGCGATCCTGAAAAATCATATCCAGGCTGTATCAATTTATCGTTTGCC
TTTGTTGAGGGAGAATCATTGTTAATGGCATTAAAAGATGTTGCTTTATCAAGTGGCAGT
GCATGTACATCAGCATCACTTGAGCCATCATATGTTTTGAGAGCAATCGGAACAGAAGAA
GACTTAGCACATAGCTCAATTCGTTTTGGAATTGGAAGATTCACGACAATAGAAGAAGTT
GATTATACAGTAGAGAAAACTATAAAACACGTAAATAGATTAAGAGAAATGTCTCCATTA
TGGGAGATGGTACAGGAAGGCATTGACATTAAGACAATACAATGGTCACAGCATTAG
>g9850.t12 Gene=g9850 Length=381
MLPYLTNYYGNPHSRTHYYGWETETAVEKARNQVAKLIGADPKEIIFTSGATESNNVAIK
GVGRFYAEKKKHIITTQTEHKCVLDSCRALEGEGFKVTYMPVNSNGLIDIEALEKAITPE
TSLVSIMSVNNEIGVRQPIEEIGKLCRSKKVFFHTDAAQAVGKIPINVNEMNIDLMSISG
HKIYGPKGIGCIYIRRRPRVRIEAIQSGGGQERGIRSGTLPAPLVVGLGAACEIAEKEMD
YDHKRIEFLSKRLLDGILGNLEHVVRNGDPEKSYPGCINLSFAFVEGESLLMALKDVALS
SGSACTSASLEPSYVLRAIGTEEDLAHSSIRFGIGRFTTIEEVDYTVEKTIKHVNRLREM
SPLWEMVQEGIDIKTIQWSQH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g9850.t12 | Gene3D | G3DSA:3.40.640.10 | - | 1 | 238 | 3.3E-146 |
| 7 | g9850.t12 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 239 | 352 | 3.3E-146 |
| 4 | g9850.t12 | Hamap | MF_00331 | Cysteine desulfurase IscS [iscS]. | 1 | 372 | 47.530384 |
| 2 | g9850.t12 | PANTHER | PTHR11601 | CYSTEINE DESULFURYLASE FAMILY MEMBER | 1 | 367 | 6.5E-191 |
| 3 | g9850.t12 | PANTHER | PTHR11601:SF34 | CYSTEINE DESULFURASE, MITOCHONDRIAL | 1 | 367 | 6.5E-191 |
| 9 | g9850.t12 | PIRSF | PIRSF005572 | NifS | 1 | 361 | 2.5E-119 |
| 1 | g9850.t12 | Pfam | PF00266 | Aminotransferase class-V | 2 | 345 | 6.5E-86 |
| 6 | g9850.t12 | ProSitePatterns | PS00595 | Aminotransferases class-V pyridoxal-phosphate attachment site. | 173 | 192 | - |
| 5 | g9850.t12 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 1 | 368 | 1.45E-101 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0044571 | [2Fe-2S] cluster assembly | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | MF |
| GO:0031071 | cysteine desulfurase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K04487 (cysteine desulfurase)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
