Gene loci information

Transcript annotation

  • This transcript has been annotated as Cystathionine gamma-lyase.

Parent gene

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 g3934 g3934.t14 isoform g3934.t14 28990727 28992093
chr_3 g3934 g3934.t14 exon g3934.t14.exon1 28990727 28991293
chr_3 g3934 g3934.t14 cds g3934.t14.CDS1 28991004 28991293
chr_3 g3934 g3934.t14 exon g3934.t14.exon2 28991350 28991408
chr_3 g3934 g3934.t14 cds g3934.t14.CDS2 28991350 28991408
chr_3 g3934 g3934.t14 exon g3934.t14.exon3 28991560 28991877
chr_3 g3934 g3934.t14 cds g3934.t14.CDS3 28991560 28991877
chr_3 g3934 g3934.t14 exon g3934.t14.exon4 28991945 28992093
chr_3 g3934 g3934.t14 cds g3934.t14.CDS4 28991945 28992093
chr_3 g3934 g3934.t14 TTS g3934.t14 28992182 28992182
chr_3 g3934 g3934.t14 TSS g3934.t14 NA NA

Sequences

>g3934.t14 Gene=g3934 Length=1093
AGCTGTTGTGCCTCCAATTTCATTGAGCACGACATTCAAACAAACAGCACCAGGCGTTCA
TTCGGGATTTGAGTATAGTCGTTCAGGTAATCCAACTAGAAATGTCCTTGAAGCATGCCT
CGCTGGTCTCGACAATGCCAAATTCGCAGTAACATTTGCTAGTGGTCTTGGTACACAGAC
TGCCATCATCAGCACACTTAAAACTGGCGATGGAATCATCACTGGTGATGATATATACGG
CGGAACAAATCGATTGTTTCGTAATCTTGCCGCAAATATGGGAATTGAAGTTCAATTTGT
TGATTTAACCGATTTGAAAAACTTGGAGCAATCAATAAAACCAAATACAAAACTCGTATG
GATGGAAACACCAACAAATCCGTGTATGAAAGTGATTGATATTAAAGGCGTTGCAGACAT
TGTTCATTCCAAAACAAAAGCTTTCCTTGTTGTTGACAATACCTTCTTATCGGCTTACTT
TCAACGTCCATTAGATTTGGGTGCTGATATTGTTATGTACAGTTTAACAAAATACATGAA
TGGTCATACTGATGTAATTATGGGCAGCGCATCAACAAATAATGATGAATTGCATGAAAA
ACTCCGCTTTTATCAAAATGCTACAGGCATCGTTCCATCGCCATTCGATTGCTACTTGGT
GAATAGAAGTTTGAAAACACTTTCATTGAGAATGGAGCGACACTTTTTCAACTCAGTTAC
AGTTGCAAAATGGCTTGAGGCACATCCAAAAGTTGAAAAAGTTTTGCATCCTGCATTGCT
TTCTCATCCACAACATAAGCTTGCACTGACACAAACATTTGGCCATTCTGGAATAATGTC
ATTCTATATAAAAGATGCATCTCTGGAGAAATCGTCAAAGTTTTTGCAAGTTTTAAAAGT
TTTTACACTAGCAGAAAGTCTCGGAGGCTATGAATCACTTGCAGAATTGCCGAGCGTTAT
GACGCATGCATCCGTTCCAGAAGCACAACGAGCTGAATTAGGCATTACTGATGGACTTGT
GCGTATTTCTGTCGGTCTTGAAGACTCACAGGATTTAATAAAAGACCTCGAGCAGGCTTT
TGATTCCATTTAA

>g3934.t14 Gene=g3934 Length=271
MGIEVQFVDLTDLKNLEQSIKPNTKLVWMETPTNPCMKVIDIKGVADIVHSKTKAFLVVD
NTFLSAYFQRPLDLGADIVMYSLTKYMNGHTDVIMGSASTNNDELHEKLRFYQNATGIVP
SPFDCYLVNRSLKTLSLRMERHFFNSVTVAKWLEAHPKVEKVLHPALLSHPQHKLALTQT
FGHSGIMSFYIKDASLEKSSKFLQVLKVFTLAESLGGYESLAELPSVMTHASVPEAQRAE
LGITDGLVRISVGLEDSQDLIKDLEQAFDSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g3934.t14 CDD cd00614 CGS_like 1 269 0
6 g3934.t14 Gene3D G3DSA:3.40.640.10 - 1 135 0
5 g3934.t14 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 136 271 0
2 g3934.t14 PANTHER PTHR11808:SF15 CYSTATHIONINE GAMMA-LYASE 1 270 0
3 g3934.t14 PANTHER PTHR11808 TRANS-SULFURATION ENZYME FAMILY MEMBER 1 270 0
1 g3934.t14 Pfam PF01053 Cys/Met metabolism PLP-dependent enzyme 1 268 0
4 g3934.t14 SUPERFAMILY SSF53383 PLP-dependent transferases 2 270 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. There were no conditions that were differentially expressed