General information for g12220.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tyrosine aminotransferase.
Parent gene
- The parent gene g12220 is located on chr_1: 21793515..21795605 (+ 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 | g12220 | g12220.t1 | TSS | g12220.t1 | 21793475 | 21793475 |
| chr_1 | g12220 | g12220.t1 | isoform | g12220.t1 | 21793515 | 21795605 |
| chr_1 | g12220 | g12220.t1 | exon | g12220.t1.exon1 | 21793515 | 21794340 |
| chr_1 | g12220 | g12220.t1 | cds | g12220.t1.CDS1 | 21793515 | 21794340 |
| chr_1 | g12220 | g12220.t1 | exon | g12220.t1.exon2 | 21795132 | 21795226 |
| chr_1 | g12220 | g12220.t1 | cds | g12220.t1.CDS2 | 21795132 | 21795226 |
| chr_1 | g12220 | g12220.t1 | exon | g12220.t1.exon3 | 21795306 | 21795605 |
| chr_1 | g12220 | g12220.t1 | cds | g12220.t1.CDS3 | 21795306 | 21795605 |
| chr_1 | g12220 | g12220.t1 | TTS | g12220.t1 | 21795631 | 21795631 |
Sequences
>g12220.t1 Gene=g12220 Length=1221
ATGAAAAAGTGGAATATAAAACTTTCAGAATTTGGAGAAAATACAGAAAATCATTTGAGA
TTGTTAATTGAGAATGAAAAAATTAAAGGAAACGAAGAAAAGACAAAAATAACGATGAGA
TTGGGCGATCCAAGTGTTTTTGGAAATTTTCCACCTCATCCGAGTATAAAAAGTGCTATA
ACTGAAGCAATTCAGAGAGATAAATTTACATATGCAGGTAATGTTGGTTATATTTTTGCA
AGAGAAGCAGTTGCTGAATATGCGAGTCATATGGGTGAAATTAAAGCTGATGATGTCATT
CTTACAAATTGTTGCTCAATGTCATTAGAAATGTGTATTTTAGCACTTGCTAATCGTGGT
GAAAATATTTTAGTACCAAAACCTTGTTATCATTATGAGACATTTACCAATGGAATTGGC
ATTGAAATTCAATACTATAATCTCGATCCAGAAAATGATTGGCAAATTGATTTGGTGCAT
CTTGAAAGTTTAATTAACGAAAAGACAAAAGCAATTGTTGTAAATAGTCCAGGAAATCCT
TGTGGTAATGTCTTTTCACTTCAACATATGTTTGAAATAATTGATATTGCTGAAAGACAC
TGTTTGCCTATAATTTCTGATGAAATTTATGAATTTGTCACATTTGGTGATGTCAAACAT
TATTCATTTGCATCTGTTTCAAAAAATGTTCCAATTCTGGTTTGTTCTGGTTTAACTAAA
AGATTTTTAACTCCAGCAATAAGATGTGGTTGGATTATAATAAGTGATAGAGGAAATAAA
TTACAAGAAATTCGTAAAGGGTTAATACAAAAGATAGGAGGAAGAGGTTTCGGGCCAAAC
AGCACAATACAGCATGCATTATCAAACATTTTAAAGAACGTTCCGCAAACATTCTTCAAT
AATGTAAATGCGAGAGTTGATAACAATGCTAGATTGCTGTTTGATCATTTGAATAAAATA
AAAGGTCTACGACCTATCATGCCAAAAGGATCAATTTTTATGCTCCTTAAAATTGAACTG
GAAAAATTCCCTAAAATATCATCGAGTATGGAGTTTATGCAGTTACTGATAAAAGAACAA
AATGTTTACACTTTTCCATCAGAATGCTTTCATTTTCCAGGATATTTAAGACTTGTCCTG
ACTATTCCAACTGATGTGCTCCTTGAGACGTGCACAAGATTTGAAGAATTTTGTAATAAA
TATTTAAATAATGAACAATAA
>g12220.t1 Gene=g12220 Length=406
MKKWNIKLSEFGENTENHLRLLIENEKIKGNEEKTKITMRLGDPSVFGNFPPHPSIKSAI
TEAIQRDKFTYAGNVGYIFAREAVAEYASHMGEIKADDVILTNCCSMSLEMCILALANRG
ENILVPKPCYHYETFTNGIGIEIQYYNLDPENDWQIDLVHLESLINEKTKAIVVNSPGNP
CGNVFSLQHMFEIIDIAERHCLPIISDEIYEFVTFGDVKHYSFASVSKNVPILVCSGLTK
RFLTPAIRCGWIIISDRGNKLQEIRKGLIQKIGGRGFGPNSTIQHALSNILKNVPQTFFN
NVNARVDNNARLLFDHLNKIKGLRPIMPKGSIFMLLKIELEKFPKISSSMEFMQLLIKEQ
NVYTFPSECFHFPGYLRLVLTIPTDVLLETCTRFEEFCNKYLNNEQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g12220.t1 | CDD | cd00609 | AAT_like | 37 | 396 | 0 |
| 5 | g12220.t1 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 38 | 398 | 0 |
| 6 | g12220.t1 | Gene3D | G3DSA:3.40.640.10 | - | 54 | 294 | 0 |
| 2 | g12220.t1 | PANTHER | PTHR45744 | TYROSINE AMINOTRANSFERASE | 10 | 402 | 0 |
| 3 | g12220.t1 | PANTHER | PTHR45744:SF2 | TYROSINE AMINOTRANSFERASE | 10 | 402 | 0 |
| 8 | g12220.t1 | PIRSF | PIRSF000517 | Tyr_transaminase | 1 | 406 | 0 |
| 1 | g12220.t1 | Pfam | PF00155 | Aminotransferase class I and II | 36 | 393 | 0 |
| 4 | g12220.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 15 | 401 | 0 |
| 7 | g12220.t1 | TIGRFAM | TIGR01265 | tyr_nico_aTase: tyrosine/nicotianamine family aminotransferase | 4 | 400 | 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:0009058 | biosynthetic process | BP |
| GO:0006520 | cellular amino acid metabolic process | BP |
| GO:0008483 | transaminase activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | MF |
KEGG
Orthology
- This transcript has been annotated with K00812 (aspartate aminotransferase)
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