General information for g14411.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cystathionine gamma-lyase.
Parent gene
- The parent gene g14411 is located on chr_4: 362015..362631 (+ 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_4 | g14411 | g14411.t4 | TSS | g14411.t4 | 358967 | 358967 |
| chr_4 | g14411 | g14411.t4 | isoform | g14411.t4 | 359199 | 362026 |
| chr_4 | g14411 | g14411.t4 | exon | g14411.t4.exon1 | 359199 | 359227 |
| chr_4 | g14411 | g14411.t4 | cds | g14411.t4.CDS1 | 359199 | 359227 |
| chr_4 | g14411 | g14411.t4 | exon | g14411.t4.exon2 | 361049 | 361147 |
| chr_4 | g14411 | g14411.t4 | cds | g14411.t4.CDS2 | 361049 | 361147 |
| chr_4 | g14411 | g14411.t4 | exon | g14411.t4.exon3 | 361370 | 361434 |
| chr_4 | g14411 | g14411.t4 | cds | g14411.t4.CDS3 | 361370 | 361434 |
| chr_4 | g14411 | g14411.t4 | exon | g14411.t4.exon4 | 361494 | 361867 |
| chr_4 | g14411 | g14411.t4 | cds | g14411.t4.CDS4 | 361494 | 361867 |
| chr_4 | g14411 | g14411.t4 | exon | g14411.t4.exon5 | 361923 | 362026 |
| chr_4 | g14411 | g14411.t4 | cds | g14411.t4.CDS5 | 361923 | 362024 |
| chr_4 | g14411 | g14411.t4 | TTS | g14411.t4 | 362827 | 362827 |
Sequences
>g14411.t4 Gene=g14411 Length=671
ATGGATCAATTAAATGAGAAATTCTCAGGATTGACGTTTGGAGAACGCTTGGGGTTTAAA
AAAACTGATGACGGATTTGCAACAAAAGCTATACACGCCGGTCAAGAACCAGAACAATGG
AAATGCAGAGCTGTGGTTCCGTTAATTTCTCTTTCAACAACATTCAAACAATTTGCACCA
GCACAACATGCAGGTTATGAATACAGTCGTTCAGGAAATCCAACAAGAAATGTTCTTGAG
ACATGCCTTGCTGCTCTTGATAATGCAAAATTTGCACTTACATTTGCTTCAGGTCTTGGT
GCACAAACTGCCATTATAAGCACTCTTAAAACAGGCGATGCAATTATTACTGGCGATGAT
GTTTATGGAGGAACTAATCGCTTATTTCGTAATCTCGCAGTCAATATGGGAATGGAAGTC
ATTTTTGTTGATATGACTGATCTTAAAAATTTAGAACGTGCTATGAAAGAAAATGTGAAA
CTCGTTTGGTTAGAAACTCCTACAAATCCCAGCATGAAAGTCATTGATATTGAGAATGTT
TGTAAATTTGTTCATGAAAATTCAAAGGCCATTGTTTTAGTTGATAATACATTCCTTTCA
CCATACTTTCAACGTCCAATTGACCTTGGTGCTGATGCTGTAACTTATTCATTAACAAAA
TATATGAATGG
>g14411.t4 Gene=g14411 Length=223
MDQLNEKFSGLTFGERLGFKKTDDGFATKAIHAGQEPEQWKCRAVVPLISLSTTFKQFAP
AQHAGYEYSRSGNPTRNVLETCLAALDNAKFALTFASGLGAQTAIISTLKTGDAIITGDD
VYGGTNRLFRNLAVNMGMEVIFVDMTDLKNLERAMKENVKLVWLETPTNPSMKVIDIENV
CKFVHENSKAIVLVDNTFLSPYFQRPIDLGADAVTYSLTKYMN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g14411.t4 | Gene3D | G3DSA:3.40.640.10 | - | 25 | 223 | 0 |
| 2 | g14411.t4 | PANTHER | PTHR11808:SF15 | CYSTATHIONINE GAMMA-LYASE | 21 | 223 | 0 |
| 3 | g14411.t4 | PANTHER | PTHR11808 | TRANS-SULFURATION ENZYME FAMILY MEMBER | 21 | 223 | 0 |
| 1 | g14411.t4 | Pfam | PF01053 | Cys/Met metabolism PLP-dependent enzyme | 27 | 223 | 0 |
| 4 | g14411.t4 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 24 | 222 | 0 |
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:0019346 | transsulfuration | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
