Gene loci information

Transcript annotation

  • This transcript has been annotated as Alanine–glyoxylate aminotransferase 2-like.

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_1 g13861 g13861.t7 isoform g13861.t7 32888152 32889378
chr_1 g13861 g13861.t7 exon g13861.t7.exon1 32888152 32888381
chr_1 g13861 g13861.t7 cds g13861.t7.CDS1 32888250 32888381
chr_1 g13861 g13861.t7 exon g13861.t7.exon2 32888470 32889039
chr_1 g13861 g13861.t7 cds g13861.t7.CDS2 32888470 32889039
chr_1 g13861 g13861.t7 exon g13861.t7.exon3 32889100 32889378
chr_1 g13861 g13861.t7 cds g13861.t7.CDS3 32889100 32889195
chr_1 g13861 g13861.t7 TSS g13861.t7 NA NA
chr_1 g13861 g13861.t7 TTS g13861.t7 NA NA

Sequences

>g13861.t7 Gene=g13861 Length=1079
ATGTCCAGATACTTATCGGGGAAAATATCGTGATAGTGACTATCCAGAATGTGAGTTGGG
TGAAATGTATGCAAATGATGTGAAAGAAATTATTGAAAATGTCGAAAAAGAAGGTCGAGG
TATTGCAGCATTCATTGCAGAGTCGTTACAAAGTTGTGGAGGGCAAATTATTTACCCAAA
AGATTACTTCAGAAAAGTTTTTAAAGCAGTACGTGCAAATGGAGGAGTTTGTTGGGTTTG
GGCGTGTCGGAATAAAGTATTGGGCATTTGAAACACAAGAAGTTGTTCCCGACATTGTAA
CCGTTGCTAAACCAATGGGAAATGGGCATCCTGTCGGAGCTGTTATTTGCACAAAAGAAA
TTGCTGATAGTTTTACAAATACTAATGTGCAATATTTCAATACTTTTGGAGGCAATCCAG
TGTCATGTGCTATCGCTAATGCAGTGATGCAAGTCATAGAAGAGGAAAAACTTCAAGAAA
ATTGCTTAATTGTTGGTGATTATCTAATGCAACGATCAACAGAATTGATGCGTAACTTTT
CAATTATCGGAGATGTGAGAGGAATGGGCTTGTTTATTGGAATTGAGTTAGTCAAAGATC
GAAAGTTAAGAACACCTGCAACAGAAGAGGCAGCATTTGTAGTCAATCGAATGAAGAATA
TCCACAAAATTTTAGTGAGCTCAGATGGTCCAGATGAGAATGTTGTTAAATTGAAACCAC
CAATGGTTTTCAATAAACAAAATGCGGATGAATTTATTGCAGGATTTATCGAATGTCTTC
AACAGCTTGAAGAAAGAGATAAAATGAGAAAATTAACTACAACTCAATTGCCATGTGCAT
TGACTGCATCTACAACCATCATGGAAAAGCGTGAACATACTGTAAAATCTATTTGAGATT
AAATTAACAGAACTACTATTAACTAGTTTTAAGCAACTTTTATTATTTTATTATATTATA
TATGTACAAAAGAATATCATATTTTATTAAAAGAGAATTTAAATTTTAAGCATAAATCCA
TAATTTTTTAAATAACGATCAAATTTCAAAAACAATTTGTAATTTTCTCTTTAAAAAGT

>g13861.t7 Gene=g13861 Length=265
MSKKKVEVLQHSLQSRYKVVEGKLFTQKITSEKFLKQYVQMEEFVGFGRVGIKYWAFETQ
EVVPDIVTVAKPMGNGHPVGAVICTKEIADSFTNTNVQYFNTFGGNPVSCAIANAVMQVI
EEEKLQENCLIVGDYLMQRSTELMRNFSIIGDVRGMGLFIGIELVKDRKLRTPATEEAAF
VVNRMKNIHKILVSSDGPDENVVKLKPPMVFNKQNADEFIAGFIECLQQLEERDKMRKLT
TTQLPCALTASTTIMEKREHTVKSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g13861.t7 Gene3D G3DSA:3.40.640.10 - 44 124 0
5 g13861.t7 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 125 221 0
2 g13861.t7 PANTHER PTHR45688:SF13 ALANINE–GLYOXYLATE AMINOTRANSFERASE 2-LIKE 44 231 0
3 g13861.t7 PANTHER PTHR45688 - 44 231 0
1 g13861.t7 Pfam PF00202 Aminotransferase class-III 46 227 0
4 g13861.t7 SUPERFAMILY SSF53383 PLP-dependent transferases 44 230 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. There were no conditions that were differentially expressed