General information for g13861.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alanine–glyoxylate aminotransferase 2-like.
Parent gene
- The parent gene g13861 is located on chr_1: 32888616..32895295 (+ 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 | g13861 | g13861.t3 | TSS | g13861.t3 | 32885627 | 32885627 |
| chr_1 | g13861 | g13861.t3 | isoform | g13861.t3 | 32885783 | 32888384 |
| chr_1 | g13861 | g13861.t3 | exon | g13861.t3.exon1 | 32885783 | 32885850 |
| chr_1 | g13861 | g13861.t3 | cds | g13861.t3.CDS1 | 32885783 | 32885850 |
| chr_1 | g13861 | g13861.t3 | exon | g13861.t3.exon2 | 32885914 | 32886032 |
| chr_1 | g13861 | g13861.t3 | cds | g13861.t3.CDS2 | 32885914 | 32886032 |
| chr_1 | g13861 | g13861.t3 | exon | g13861.t3.exon3 | 32887027 | 32887264 |
| chr_1 | g13861 | g13861.t3 | cds | g13861.t3.CDS3 | 32887027 | 32887264 |
| chr_1 | g13861 | g13861.t3 | exon | g13861.t3.exon4 | 32887936 | 32888035 |
| chr_1 | g13861 | g13861.t3 | cds | g13861.t3.CDS4 | 32887936 | 32888035 |
| chr_1 | g13861 | g13861.t3 | exon | g13861.t3.exon5 | 32888147 | 32888384 |
| chr_1 | g13861 | g13861.t3 | cds | g13861.t3.CDS5 | 32888147 | 32888383 |
| chr_1 | g13861 | g13861.t3 | TTS | g13861.t3 | 32889311 | 32889311 |
Sequences
>g13861.t3 Gene=g13861 Length=763
ATGACTGAAAGTGTCAAAGAATTGCTTCCAAAAAAGGAAACTATCGAACTTCGTAACAAA
CTTATTGGAAAATCATGTTCGTTATTCTATAAATCAGATCCTTTGAAAATCGTTCGAGGA
CAAGGACAATACATGTTTGATGAAGAAGGTCATAAATATTTAGATTGCATCAATAATGTA
GCAACGGTCGGGCATTGCCACCCAAAAGTCGTCGAAGCTGGCTCCAAACAGATGTCAATC
ATTTCAACAAATTCTCGATTTTTACATGATGAAATGATTTTATGCGCACAAAATCTAATA
AACCGTATGCCAGGCAATACTTTATCAGTATGCTATTTTGTTAATAGCGGTTCAGAAGCC
AATGATTTAGCTTTGCGATTAGCAAGAGCACATACGAAGCAACGCGATGTTATTACATTA
GACCATGCATATCATGGTCATCTTCTTGCCTGTATGGAAATTTCTCCATACAAGTTCAAT
CAATCAGATAATATTGATGTAAAGAAGCCAAATTATGTTCACATTGCATCATGTCCAGAT
ACTTATCGGGGAAAATATCGTGATAGTGACTATCCAGAATGTGAGTTGGGTGAAATGTAT
GCAAATGATGTGAAAGAAATTATTGAAAATGTCGAAAAAGAAGGTCGAGGTATTGCAGCA
TTCATTGCAGAGTCGTTACAAAGTTGTGGAGGGCAAATTATTTACCCAAAAGATTACTTC
AGAAAAGTTTTTAAAGCAGTACGTGCAAATGGAGGAGTTTGTA
>g13861.t3 Gene=g13861 Length=254
MTESVKELLPKKETIELRNKLIGKSCSLFYKSDPLKIVRGQGQYMFDEEGHKYLDCINNV
ATVGHCHPKVVEAGSKQMSIISTNSRFLHDEMILCAQNLINRMPGNTLSVCYFVNSGSEA
NDLALRLARAHTKQRDVITLDHAYHGHLLACMEISPYKFNQSDNIDVKKPNYVHIASCPD
TYRGKYRDSDYPECELGEMYANDVKEIIENVEKEGRGIAAFIAESLQSCGGQIIYPKDYF
RKVFKAVRANGGVC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13861.t3 | Gene3D | G3DSA:3.40.640.10 | - | 68 | 254 | 0 |
| 2 | g13861.t3 | PANTHER | PTHR45688:SF1 | ETHANOLAMINE-PHOSPHATE PHOSPHO-LYASE | 7 | 253 | 0 |
| 3 | g13861.t3 | PANTHER | PTHR45688 | - | 7 | 253 | 0 |
| 1 | g13861.t3 | Pfam | PF00202 | Aminotransferase class-III | 35 | 247 | 0 |
| 4 | g13861.t3 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 13 | 253 | 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:0008483 | transaminase 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.
