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_4 g16128 g16128.t1 TSS g16128.t1 8294887 8294887
chr_4 g16128 g16128.t1 isoform g16128.t1 8294936 8296201
chr_4 g16128 g16128.t1 exon g16128.t1.exon1 8294936 8295048
chr_4 g16128 g16128.t1 cds g16128.t1.CDS1 8294936 8295048
chr_4 g16128 g16128.t1 exon g16128.t1.exon2 8295112 8296201
chr_4 g16128 g16128.t1 cds g16128.t1.CDS2 8295112 8296201
chr_4 g16128 g16128.t1 TTS g16128.t1 8296222 8296222

Sequences

>g16128.t1 Gene=g16128 Length=1203
ATGAATCAAATTCCATTAACGTTAGGAGAGAAAATTGGTTTTAAAAAGCAGCCAAGAGGT
TTTTCTACACGAGCTATTCATGCAGGGCAAGATCCTAATCAATGGAAATCTCATGCTGTT
ATACCACCAATTGTGACTTCAACAACATTTGCACAAGATGGTCCAAATGAGCATTCAGGC
TATCAATATAGTCGCTATAAAAATGCTACTCGAAATTCACTCGAACAATGCTTAGCAGCG
CTTGATAATGCCAAATATGCAGTTGCTTTTAGTGCAGGAGTAAGCACATTGACAGCGATT
CTGACTACATTTGAATCAGGTGACGGAGTTATAACAAGTCGAGGTTTTTATGCTGGAAAC
TTTAAAATTCTTGATGCTTTTTCAAAGCTTGGAGTGAAAGTGAAATACATTGATTTTACT
GATAGTAAAAATTTAAAACAAGCACTTGATGATAGCACAAAAATGGTCTGGTTAGAATCA
CCAATGAATCCTTCTATGACAGTTTTAGACATTCAATTACTCTCAGAAATTGTACATAAA
AATTCAAAAGCATTTCTCGTTGTTGACAACACATTTTTAACACCATACTTTCAACGACCA
TTGGAATTAGGTGCAGATGTTGTTGCTTATTCAATTAGTAAATTTATAGGTGGACATTCA
GACATAATTGGTGGTTCGATAAGTACAAATAATAAAGAATTTTATGATAAAATATCAGCT
TATCAAATAATGATTGGAGTTGTTAATTCGCCATTTGATAGCTACTTGATTAATCGCAGT
CTAAAAACCTTATCAGTTCGTATGGAAAAACATTTTGAAAATTCCTATGCTGTTGCTAAA
TTTTTGGAATCGCATGAAAAAATTGAAAAAGTCAATCATCCAGCTTTAGAATCGCATAAA
GAATTTGAAGTGGCTAAAAAACAATCATATGGTCATTCTGGAATTTTTACATTTTTCATT
AAAAATGGAACTTTAGAACAATCGAAAACATTCTTGAAAGCATTAAAAGTAGTAATATGC
GGTGAAAGTCTTGGTGGTGTAGAGACTCTGGCCTCTTACCCATGGTTAATGACTCATGGA
TACTTGAAAGATGAAGAGAAAATTAAAGCTGGTGTTACTCCCAATCTGATAAGAATTTCA
ATTGGCCTTGAAGACGTTCGTGACTTAATTGATGATATTGAAAATGCATTGAAATCAATT
TAA

>g16128.t1 Gene=g16128 Length=400
MNQIPLTLGEKIGFKKQPRGFSTRAIHAGQDPNQWKSHAVIPPIVTSTTFAQDGPNEHSG
YQYSRYKNATRNSLEQCLAALDNAKYAVAFSAGVSTLTAILTTFESGDGVITSRGFYAGN
FKILDAFSKLGVKVKYIDFTDSKNLKQALDDSTKMVWLESPMNPSMTVLDIQLLSEIVHK
NSKAFLVVDNTFLTPYFQRPLELGADVVAYSISKFIGGHSDIIGGSISTNNKEFYDKISA
YQIMIGVVNSPFDSYLINRSLKTLSVRMEKHFENSYAVAKFLESHEKIEKVNHPALESHK
EFEVAKKQSYGHSGIFTFFIKNGTLEQSKTFLKALKVVICGESLGGVETLASYPWLMTHG
YLKDEEKIKAGVTPNLIRISIGLEDVRDLIDDIENALKSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g16128.t1 CDD cd00614 CGS_like 38 398 0
6 g16128.t1 Gene3D G3DSA:3.40.640.10 - 20 264 0
5 g16128.t1 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 265 400 0
2 g16128.t1 PANTHER PTHR11808:SF15 CYSTATHIONINE GAMMA-LYASE 16 399 0
3 g16128.t1 PANTHER PTHR11808 TRANS-SULFURATION ENZYME FAMILY MEMBER 16 399 0
7 g16128.t1 PIRSF PIRSF001434 CGS 10 400 0
1 g16128.t1 Pfam PF01053 Cys/Met metabolism PLP-dependent enzyme 23 398 0
4 g16128.t1 SUPERFAMILY SSF53383 PLP-dependent transferases 42 399 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

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