Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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 g3933 g3933.t3 TSS g3933.t3 28985355 28985355
chr_3 g3933 g3933.t3 isoform g3933.t3 28985479 28988341
chr_3 g3933 g3933.t3 exon g3933.t3.exon1 28985479 28985513
chr_3 g3933 g3933.t3 exon g3933.t3.exon2 28986607 28986705
chr_3 g3933 g3933.t3 exon g3933.t3.exon3 28987123 28987679
chr_3 g3933 g3933.t3 cds g3933.t3.CDS1 28987137 28987679
chr_3 g3933 g3933.t3 exon g3933.t3.exon4 28987737 28988098
chr_3 g3933 g3933.t3 cds g3933.t3.CDS2 28987737 28987757
chr_3 g3933 g3933.t3 exon g3933.t3.exon5 28988166 28988341
chr_3 g3933 g3933.t3 TTS g3933.t3 28988587 28988587

Sequences

>g3933.t3 Gene=g3933 Length=1229
ATGGGTTATCAAAGTGTCTCAAATGAACTAGCACCTTTGACAGAAAATGAGGCGATAGGA
TTTTTACGACAGGAATCTGGCTTTTCTACAAAAGCTATTCATGCAGGATATCGTCCTGAA
CAGTTATTGTGCCGTTGCACCTATTTATATGTCCGCATCATCATGCTCACAGAGCAATGG
AGTAAATGACGATTTGAATAAAAGCGAGAACCCAACAAAAATGATTCTTGAACAGACATT
AGCAGCACTTGATAATGCAAAATATGCCCTTGTATTACCATCTGGCACAGCTGCACAGAG
CTGTATAATTGCGTCACTTAAAGCTGACGATGGAATTATTTGCGGACATAATATTTATAC
AGGCACAATAGAGCTCTTTCGTGAAACAGCAGTAGATATTGGACTAAAGTGCATTTTTGT
TGACATGACAAAACCCGAAGAACTGAGAAAAGCTCTGAGATCTCAAAAATCAACTAAAGT
CGTTTGGGTTGAAACACCAAGCAACCCAATGATGCTTATAAGTGACATAAAAACAATTTC
TGATATTGTGCATTGTGAAAGTAATGCTCTTGTTATCGTTGACAATACTCCATCAAGTTG
CTATTTCCAGAGGCCTTTGGATTTTGGTGCAGATGTTGTCTCATATTCAATTACAAAATT
CGTAAATGGACATAATGATGTTATTATGTTCGGGGAGCATTTCAACAAATAATCGAGAAT
TTTATGAGAAAATAAGATTTACACAGGAAATTACTGGAATTACTTGTTCACCATTTGATT
GTGCTTTGGTGATACGAAGTTTGAAAACTTTGTCACTTCGCATGGAAAGACATTCTTTAA
ATGCTTTATTGATAGCTCGCTACCTCGAACAACATCCTCGTGTTGAGAAAGTTCTTCATC
CTGGCCTAACATCACATCCACAACACAAAATTGCCATTTCACAAAGTTGTGGTCATGGTG
GAAGTCTTTGTTTTTACATTAAAGATGGAACATTAGAACAAACAAAGAAATTCTTAAAAT
TATTAAAAGTTTTTACTTGGGCTGACTCTTTAGGAGGATGCGAATCTTTAGCACAAGCGC
CACTTTTATGGTTTGTAGTACCGACATCTTTTTCTGATGAGGAAGTTCATGAGTTAGGAC
TGGTGGAGAATTTAATACGTCTATCTTGCGGTCTCGAGGATGTGGCAATTTTAATTGAGG
ATTTGAATCAGGCATTAAATGCTCTTTGA

>g3933.t3 Gene=g3933 Length=187
MSASSCSQSNGVNDDLNKSENPTKMILEQTLAALDNAKYALVLPSGTAAQSCIIASLKAD
DGIICGHNIYTGTIELFRETAVDIGLKCIFVDMTKPEELRKALRSQKSTKVVWVETPSNP
MMLISDIKTISDIVHCESNALVIVDNTPSSCYFQRPLDFGADVVSYSITKFVNGHNDVIM
FGEHFNK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3933.t3 Gene3D G3DSA:3.40.640.10 - 3 182 5.3E-50
2 g3933.t3 PANTHER PTHR11808:SF15 CYSTATHIONINE GAMMA-LYASE 18 180 2.7E-52
3 g3933.t3 PANTHER PTHR11808 TRANS-SULFURATION ENZYME FAMILY MEMBER 18 180 2.7E-52
1 g3933.t3 Pfam PF01053 Cys/Met metabolism PLP-dependent enzyme 17 180 7.2E-52
5 g3933.t3 ProSitePatterns PS00868 Cys/Met metabolism enzymes pyridoxal-phosphate attachment site. 162 176 -
4 g3933.t3 SUPERFAMILY SSF53383 PLP-dependent transferases 18 178 2.99E-39

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