General information for g11087.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Acidic amino acid decarboxylase GADL1.
Parent gene
- The parent gene g11087 is located on chr_1: 13944876..13946934 (- 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_1 | g11087 | g11087.t1 | TTS | g11087.t1 | 13944778 | 13944778 |
| chr_1 | g11087 | g11087.t1 | isoform | g11087.t1 | 13944876 | 13946934 |
| chr_1 | g11087 | g11087.t1 | exon | g11087.t1.exon1 | 13944876 | 13945507 |
| chr_1 | g11087 | g11087.t1 | cds | g11087.t1.CDS1 | 13944876 | 13945507 |
| chr_1 | g11087 | g11087.t1 | exon | g11087.t1.exon2 | 13945576 | 13945705 |
| chr_1 | g11087 | g11087.t1 | cds | g11087.t1.CDS2 | 13945576 | 13945705 |
| chr_1 | g11087 | g11087.t1 | exon | g11087.t1.exon3 | 13945869 | 13946456 |
| chr_1 | g11087 | g11087.t1 | cds | g11087.t1.CDS3 | 13945869 | 13946456 |
| chr_1 | g11087 | g11087.t1 | exon | g11087.t1.exon4 | 13946803 | 13946934 |
| chr_1 | g11087 | g11087.t1 | cds | g11087.t1.CDS4 | 13946803 | 13946934 |
| chr_1 | g11087 | g11087.t1 | TSS | g11087.t1 | 13947032 | 13947032 |
Sequences
>g11087.t1 Gene=g11087 Length=1482
ATGGAAGATTCTTCTCTCAACTTTTTACGCAAAACATTCGAACTGCTCAACGATGGTGGC
GTATTTGATACAAAAGAGCAATGCGATGCGGAAAAGTCTCTTGTGGATTTTAGACACCCG
CATGAACTGAAGCAATTGATATTGTTTTCATTGACCGATAACATCGATACACAACATGAC
GATGATGAAATTGAAAAGCTATGCCGAGATGTTATTAAATTTTCTGTTAAAACAAACAAT
AGAAATTGTCACAATCAGCTTTTCGGTGGATTAGACTTTTATGGCCTAGCTGGTGAATGG
ATGACAAGTGCATTGAATACTGGAGCATATACATTCGAAATGGCTCCGGCATTCACATTG
ATTGAAGAGGCTGTTATACAAAAATCATTGCAACTCTTTGGCTTAGATGATGGTGATGGC
ATTTTATGTCCGGGTGGTAGTTCTGCTATTATGTATGGCATCAATCTAGCTCGATACGCT
AAATTTCCCTCATCAAAGCTTGAAGGAAATCCACAAGGTTTAGTCATGTTCACATCAGAG
GATGCACATTATTCAATGATAAAAGGCGCAAGTTTCTTGGGAATTGGAATGCAAAATCTC
ATTGCCATCAAAACTAACGAGTTTGGTCAAATGAATGTCGATGATTTGGACATGAAAATT
AATGATGCAATCAAGAGAAATCTCAAGCCATTCCTTGTGAATGCAACATGTGGAACGACG
GTGCTTGGAGCATTTGATGATTTGAATAAAATCGCTGACGTGTGCAAAAAATATAATTTG
TGGCTGCACGTTGATGCTTGCCTAGGTGGATCTGCTATTCTTTCTAGAAAACGTCGACAT
TTGTTAAGCGGAAGCGACCGAGCAAATTCGATTTCATGGAATCCTCATAAGACAATGGGA
GTTCCACTTCAATGTTCTATTTTCATGGTATATCGAAAGGGAATTTTGCACGAATGCAAC
TCATCATCAGCAAATTATCTCTTTCAACAAGATAAATTTTATGAAACAGCATACGATACG
GGTGATAAATCTTTATCATGTGGTAGAAAAGTTGATGCATTTAAATTTTGGTTAATGTTC
AAGAAGCATGGCGAACGTGGATTTGAAAAATTGATTGATAATGCTTTCGATATGTCATTA
TATTTCGTAGATCAAATTAAAAATCGTGATGGATTTGAAGTTATTTTTCAACCGCAATAT
ACAAATATTTGCTTTTTTTACATTCCTAAATTTATGCAAAAGAAGCAAGAAAGGGATGAA
AAATTTTGGGAGTGCATATCAAAACTTGCAGTGTATGTGAAAGAACGGATGATGAAGAAT
GGAAATTTAATGATTGGTTATTCACCTTTGTCGAGTAAAAATCTCGGAAATTTTTTTAGA
ATGGTTGTGACATGTCAGCCACCAGCAACAAGAGAATCAATGGACTTTGTGCTGGAACAA
ATTGAAAAGATTGCTGAAGATTTCGAATTTTACGATAAATAA
>g11087.t1 Gene=g11087 Length=493
MEDSSLNFLRKTFELLNDGGVFDTKEQCDAEKSLVDFRHPHELKQLILFSLTDNIDTQHD
DDEIEKLCRDVIKFSVKTNNRNCHNQLFGGLDFYGLAGEWMTSALNTGAYTFEMAPAFTL
IEEAVIQKSLQLFGLDDGDGILCPGGSSAIMYGINLARYAKFPSSKLEGNPQGLVMFTSE
DAHYSMIKGASFLGIGMQNLIAIKTNEFGQMNVDDLDMKINDAIKRNLKPFLVNATCGTT
VLGAFDDLNKIADVCKKYNLWLHVDACLGGSAILSRKRRHLLSGSDRANSISWNPHKTMG
VPLQCSIFMVYRKGILHECNSSSANYLFQQDKFYETAYDTGDKSLSCGRKVDAFKFWLMF
KKHGERGFEKLIDNAFDMSLYFVDQIKNRDGFEVIFQPQYTNICFFYIPKFMQKKQERDE
KFWECISKLAVYVKERMMKNGNLMIGYSPLSSKNLGNFFRMVVTCQPPATRESMDFVLEQ
IEKIAEDFEFYDK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11087.t1 | CDD | cd06450 | DOPA_deC_like | 83 | 484 | 0 |
| 4 | g11087.t1 | Gene3D | G3DSA:3.90.1150.170 | - | 25 | 484 | 0 |
| 5 | g11087.t1 | Gene3D | G3DSA:3.40.640.10 | - | 108 | 352 | 0 |
| 2 | g11087.t1 | PANTHER | PTHR45677 | GLUTAMATE DECARBOXYLASE-RELATED | 7 | 486 | 0 |
| 1 | g11087.t1 | Pfam | PF00282 | Pyridoxal-dependent decarboxylase conserved domain | 58 | 407 | 0 |
| 3 | g11087.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 34 | 488 | 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: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 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.
