General information for g2098.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cystathionine gamma-lyase.
Parent gene
- The parent gene g2098 is located on chr_3: 15197951..15199248 (- 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_3 | g2098 | g2098.t1 | TTS | g2098.t1 | 15197843 | 15197843 |
| chr_3 | g2098 | g2098.t1 | isoform | g2098.t1 | 15197951 | 15199248 |
| chr_3 | g2098 | g2098.t1 | exon | g2098.t1.exon1 | 15197951 | 15199043 |
| chr_3 | g2098 | g2098.t1 | cds | g2098.t1.CDS1 | 15197951 | 15199043 |
| chr_3 | g2098 | g2098.t1 | exon | g2098.t1.exon2 | 15199100 | 15199248 |
| chr_3 | g2098 | g2098.t1 | cds | g2098.t1.CDS2 | 15199100 | 15199248 |
| chr_3 | g2098 | g2098.t1 | TSS | g2098.t1 | 15199292 | 15199292 |
Sequences
>g2098.t1 Gene=g2098 Length=1242
ATGGATCAATTAAATACTGATTTGGTGTTTTTGAGAAATAAATTGAGAAAAGTTAGCATT
AATGAGAAATTGGGTTATTTGAAGCAAGAAAAAGGTTTTTCTACAAGATCAATTCATGCC
GGTCAAGATCCAAAGCAATGGAAATCAGGGGCTATTATTCCACCAATTTTCACATCAGTC
ATTTATGAGCAAACAGTTCCACGTAATATGTCTGACTTTTTCTATAGTCGTATTAATAAC
CCAACAAGAAGTGTTCTTCAAGAATGCCTTGCAAGCATAGAAGGCTCAAAATATGCTTTG
ACATTTGCATCAGGCATTGCAGCAATCACTGCAGTCATAACGACTCTTAGTTCAGGTGAT
GGAATCATTTGTAGCAAACATTTTTATTCTGGAACTTTGGATTCAATGTTAATTGCTGAA
AAAATGGGCTTTGATGTACAATACATTGATTTTACTGACTTAAAGCAAGTTGAAGCTGCA
ATGAAACCAAATACAAGACTTGTATGGACTGAATCATGTATGAATCCAACTTTAAGTGTC
ATCGACATCAAATCAGTTGCCACAATCGTTCATAAAAAATCTAAAAACACTATAGTACTT
GTTGATAACACATTCTTAACTCCTTATTATCTACGACCACTTGAACTTGGTGCTGATATC
GCACTTTATTCATTAACTAAATATTTTGGTGGTCATTCAGATGTTATTGGTGGCTCGATT
TCATGCAATGATGATAAAATTTATGAAATGTTGAAAAAATCGCAATTTCAAACAGGAACA
ATGGCACAACCATTTGAGTCATATTTGATAATACGAAGTGTAAAAACTTTGTCAATTCGA
CTTGAAAAACATGCTGAAAATTCTTATGCAGTTGCAAAATGGCTTGAAGCACATCCGAAA
ATTGGAAAAGTTAATCATCCTGCTTTGAAATCACATCCAGGTCATGAAATTGCTATCAAA
CAATCTTATGGACATTCTGGAATATTTTCATTCTATTTAAAAGAAGACAATTTTGAAAAG
ACCAAGAAATTTTTTGCTTCATTAAAAATGATACCAATTTGTACAAGTCTTGGAGGCGTA
GAAACGACTGTAGCATTTCCAAGAGAAATGTCTCATCATATGTATAATGATGAAGAAGTT
TATAAAATGGGAGTGACTTATAATTTAATCAGAATTTCCATTGGAATTGAAGATGTTGAA
GATATTATTAATGACTTAGAGCAAGCATTAGATTTGATTTAA
>g2098.t1 Gene=g2098 Length=413
MDQLNTDLVFLRNKLRKVSINEKLGYLKQEKGFSTRSIHAGQDPKQWKSGAIIPPIFTSV
IYEQTVPRNMSDFFYSRINNPTRSVLQECLASIEGSKYALTFASGIAAITAVITTLSSGD
GIICSKHFYSGTLDSMLIAEKMGFDVQYIDFTDLKQVEAAMKPNTRLVWTESCMNPTLSV
IDIKSVATIVHKKSKNTIVLVDNTFLTPYYLRPLELGADIALYSLTKYFGGHSDVIGGSI
SCNDDKIYEMLKKSQFQTGTMAQPFESYLIIRSVKTLSIRLEKHAENSYAVAKWLEAHPK
IGKVNHPALKSHPGHEIAIKQSYGHSGIFSFYLKEDNFEKTKKFFASLKMIPICTSLGGV
ETTVAFPREMSHHMYNDEEVYKMGVTYNLIRISIGIEDVEDIINDLEQALDLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2098.t1 | CDD | cd00614 | CGS_like | 50 | 411 | 1.7364E-156 |
| 8 | g2098.t1 | Coils | Coil | Coil | 1 | 21 | - |
| 7 | g2098.t1 | Coils | Coil | Coil | 396 | 413 | - |
| 6 | g2098.t1 | Gene3D | G3DSA:3.40.640.10 | - | 32 | 277 | 2.8E-81 |
| 5 | g2098.t1 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 278 | 413 | 4.6E-45 |
| 2 | g2098.t1 | PANTHER | PTHR11808:SF15 | CYSTATHIONINE GAMMA-LYASE | 28 | 412 | 7.8E-125 |
| 3 | g2098.t1 | PANTHER | PTHR11808 | TRANS-SULFURATION ENZYME FAMILY MEMBER | 28 | 412 | 7.8E-125 |
| 9 | g2098.t1 | PIRSF | PIRSF001434 | CGS | 21 | 413 | 2.0E-130 |
| 1 | g2098.t1 | Pfam | PF01053 | Cys/Met metabolism PLP-dependent enzyme | 35 | 410 | 5.4E-124 |
| 11 | g2098.t1 | ProSitePatterns | PS00868 | Cys/Met metabolism enzymes pyridoxal-phosphate attachment site. | 219 | 233 | - |
| 4 | g2098.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 62 | 411 | 1.17E-100 |
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 transcript has been annotated with K01739 (cystathionine gamma-synthase)
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. There were no conditions that were differentially expressed