General information for g1671.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cysteine sulfinic acid decarboxylase.
Parent gene
- The parent gene g1671 is located on chr_3: 12376630..12378337 (+ 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 | g1671 | g1671.t1 | isoform | g1671.t1 | 12375317 | 12377962 |
| chr_3 | g1671 | g1671.t1 | exon | g1671.t1.exon1 | 12375317 | 12375749 |
| chr_3 | g1671 | g1671.t1 | cds | g1671.t1.CDS1 | 12375317 | 12375749 |
| chr_3 | g1671 | g1671.t1 | exon | g1671.t1.exon2 | 12375804 | 12376072 |
| chr_3 | g1671 | g1671.t1 | cds | g1671.t1.CDS2 | 12375804 | 12376072 |
| chr_3 | g1671 | g1671.t1 | exon | g1671.t1.exon3 | 12376630 | 12376786 |
| chr_3 | g1671 | g1671.t1 | cds | g1671.t1.CDS3 | 12376630 | 12376786 |
| chr_3 | g1671 | g1671.t1 | exon | g1671.t1.exon4 | 12376881 | 12376943 |
| chr_3 | g1671 | g1671.t1 | cds | g1671.t1.CDS4 | 12376881 | 12376943 |
| chr_3 | g1671 | g1671.t1 | exon | g1671.t1.exon5 | 12377002 | 12377149 |
| chr_3 | g1671 | g1671.t1 | cds | g1671.t1.CDS5 | 12377002 | 12377149 |
| chr_3 | g1671 | g1671.t1 | exon | g1671.t1.exon6 | 12377368 | 12377962 |
| chr_3 | g1671 | g1671.t1 | cds | g1671.t1.CDS6 | 12377368 | 12377962 |
| chr_3 | g1671 | g1671.t1 | TSS | g1671.t1 | NA | NA |
| chr_3 | g1671 | g1671.t1 | TTS | g1671.t1 | NA | NA |
Sequences
>g1671.t1 Gene=g1671 Length=1665
ATGCCACTTAATAATATCACAGATGAACAATCATCACAAGCTCAAATGATTGAAAGTAGT
AGTAAAACGAAAGAAATAATCGAGGATTTTAATAATGGCAGTAGTAGTTCAGGAGTATCA
GAGGATGAAGATTTAGATTTTCAACAAAAATCAAGTGCGAATAAAAATTTCAAAAAAATG
TCAATTGAAAATGGAAGTGATCGACACGTATCGTTACCGTCTCAGCATCATGAAAAGTTT
TTACGGAACTTATTCGACAGTGTTTTAAAAAATGCAATTTTTGATGGGACAAAGAGAGAA
AATCGAGTTCTCGAATGGACAGATCCTGAGGAATTACAGAAAATATTAAATATGGAATTA
AAAGATGATGCAGACACAGATGAAACTCTTCTTAAATTGGCTAATGAGACAATCAAATAT
TCTGTCAAAACTGGTCATCCATACTTTGTAAATCAATTATTTTCATGCGTCGATCCTTAT
GGCTTTGCTGGTCAATTAATCACTGACGCACTCAATCCAAGTGTTTATACATATGAAGTG
AGCCCCGTTTTTATTTTAATGGAAGAAATTGTATTAAAAGAGATGAGAAAAATTGTTGGA
TATCATGATGGTATCGGTGATGGAATATTTTGTCCAGGAGGATCAATTGCAAATGGTTAT
GCAATTTCATGTGCTCGATATCATGCATATCCTGAAATGAAGAACAAAGGCTTACATAAT
TTACCACGACTGGTAATTTTTACATCTATTGATGCTCACTATTCAGTAAAAAAATTGGCA
TCATTTATGGGCATTGGGAATGATAATGTCTACTTGATAAATACAGACGAGATTGGAAAA
ATGGATATGAATCATTTAGAAAGTGAAATTTTGCGTGCAAAAAATGAAGGAGCATTGCCG
TTCATGGTTTCAGCCACGGCTGGCACCACTGTGTTAGGTGCATTCGATCCACTCGAGAAG
ATTGCTGATTTGTGTGAAAAATATAAAATATGGATGCATGTAGATGCCGCCTGGGGAGGA
GGTGCCTTAATGTCTAAAAAATATAAAAAATTGCTTAAAGGTATTGAGAGATCTGATTCA
GTCACATGGAATCCACATAAAATGTTGGCATGTCCACAACAATGCAGTACATTCCTTTGT
CGACATGAGGGTATTTTATCAGAATGTCACTCATCAAATGCCGCATACTTGTTTCAAAAA
GACAAGTTCTATGATACCAAATTTGATACGGGAGATAAACATATTCAATGCGGAAGACGT
GCTGACGTTTATAAATTTTGGTACATGTGGCGTGCAAAGGGAACAAAAGGATTTGAAAAA
CACATCGATTCAATTTTCGAAAAGGCCGAATATTTTACTGATCTTGTGAAAAAACAAGAA
GGATTCGAACTTGTTTCACCTCCTGAATGCACAAATGTTTGCTTTTGGTATATACCAAAA
AGATTGAGAAATCTTCCACGTGATGAACATTTTGTTCAAGAATTACACAAAATTGCACCA
AAAGTTAAAGAAAGAATGATGAAAAATGGCAGCATGATGATCACATATCAACCACTAAGA
ACAAAACCAAATTTCTTCCGTCTTGTTTTACAAGATTCATCACTCACACATCAAGATATG
ATGCATTTTGTTAATACTATTGAAAAATATAGTGAGGAGCTTTAA
>g1671.t1 Gene=g1671 Length=554
MPLNNITDEQSSQAQMIESSSKTKEIIEDFNNGSSSSGVSEDEDLDFQQKSSANKNFKKM
SIENGSDRHVSLPSQHHEKFLRNLFDSVLKNAIFDGTKRENRVLEWTDPEELQKILNMEL
KDDADTDETLLKLANETIKYSVKTGHPYFVNQLFSCVDPYGFAGQLITDALNPSVYTYEV
SPVFILMEEIVLKEMRKIVGYHDGIGDGIFCPGGSIANGYAISCARYHAYPEMKNKGLHN
LPRLVIFTSIDAHYSVKKLASFMGIGNDNVYLINTDEIGKMDMNHLESEILRAKNEGALP
FMVSATAGTTVLGAFDPLEKIADLCEKYKIWMHVDAAWGGGALMSKKYKKLLKGIERSDS
VTWNPHKMLACPQQCSTFLCRHEGILSECHSSNAAYLFQKDKFYDTKFDTGDKHIQCGRR
ADVYKFWYMWRAKGTKGFEKHIDSIFEKAEYFTDLVKKQEGFELVSPPECTNVCFWYIPK
RLRNLPRDEHFVQELHKIAPKVKERMMKNGSMMITYQPLRTKPNFFRLVLQDSSLTHQDM
MHFVNTIEKYSEEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1671.t1 | CDD | cd06450 | DOPA_deC_like | 149 | 550 | 6.14246E-120 |
| 8 | g1671.t1 | Gene3D | G3DSA:3.90.1150.170 | - | 90 | 550 | 3.7E-203 |
| 9 | g1671.t1 | Gene3D | G3DSA:3.40.640.10 | - | 174 | 422 | 3.7E-203 |
| 7 | g1671.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 5 | g1671.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 28 | 47 | - |
| 6 | g1671.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 28 | 42 | - |
| 2 | g1671.t1 | PANTHER | PTHR45677:SF12 | BLACK, ISOFORM A | 51 | 553 | 5.6E-269 |
| 3 | g1671.t1 | PANTHER | PTHR45677 | GLUTAMATE DECARBOXYLASE-RELATED | 51 | 553 | 5.6E-269 |
| 1 | g1671.t1 | Pfam | PF00282 | Pyridoxal-dependent decarboxylase conserved domain | 109 | 477 | 1.7E-107 |
| 4 | g1671.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 79 | 553 | 3.76E-124 |
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:0019752 | carboxylic acid metabolic process | BP |
| GO:0016831 | carboxy-lyase activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | MF |
KEGG
Orthology
- This transcript has been annotated with K18966 (sulfinoalanine decarboxylase / aspartate 1-decarboxylase)
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.
