Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine–pyruvate aminotransferase.

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_2 g4211 g4211.t5 TSS g4211.t5 218497 218497
chr_2 g4211 g4211.t5 isoform g4211.t5 218553 220126
chr_2 g4211 g4211.t5 exon g4211.t5.exon1 218553 218616
chr_2 g4211 g4211.t5 cds g4211.t5.CDS1 218553 218616
chr_2 g4211 g4211.t5 exon g4211.t5.exon2 218992 219368
chr_2 g4211 g4211.t5 cds g4211.t5.CDS2 218992 219368
chr_2 g4211 g4211.t5 exon g4211.t5.exon3 219432 219484
chr_2 g4211 g4211.t5 cds g4211.t5.CDS3 219432 219484
chr_2 g4211 g4211.t5 exon g4211.t5.exon4 219536 219940
chr_2 g4211 g4211.t5 cds g4211.t5.CDS4 219536 219940
chr_2 g4211 g4211.t5 exon g4211.t5.exon5 220015 220126
chr_2 g4211 g4211.t5 cds g4211.t5.CDS5 220015 220126
chr_2 g4211 g4211.t5 TTS g4211.t5 220171 220171

Sequences

>g4211.t5 Gene=g4211 Length=1011
ATGGATGTGTCTAAACCAGACAATTTTAAAGTATCGTTGGATGTAATCGAGAAAACAATG
ACAGCTTTGGAATGTGCTTTAACAAATCTAATTGAAGAAAATGATGTTATTTTAATTGTT
TGTTCTGGTATCTGGGGAACACGGGCTGGTAATATAGCAAAGCGTTTGAACGCTAATGTG
AAAATGCTTTATAAGCATGTAGGTGAACAAGTTTCACTTAAAGAAACACGCGAATGTTTC
AGAATGTATAAGCCCAAAATTTTCTTCATGGTACATGGTGAATCTAGTACAGGAATGATA
CAAAATAATATCGAAGATTATGGGAATTTATGTCGAGAGTTTGATTGTCTTTTTATTGTC
GATTGCGTTATCACGCTTGGCTGCACACCACTCTTTGTCGATAAATGGAAGATTGATATA
GCTTATACAGGCACACAGAAGGTCTTAAATGCACCACCCGGTATTTCTCCAATCACATTC
AGTCAACGAGCATACGATAAAATTGTCATGAGAAAATCATTAGTGAAGAGTTATAATTAC
GATGCGATTCTGCTTGGTGAATATTGGAATTGCTTTCCACTTCGTCCGCGAATTTACCAC
CATACAATCTGCTCTTCATTACTTTATGGCTTGCGAGAAGCAATTGCAATTTTTATTGAG
AATGGTGGATTAGAAGCATCATGGGAAAAGCATGGAAAGGTTACGAGAAAATTTCATTCT
ATACTAGAAAAAAATGGTTTACAATTGTTCATTGAAAACGCAGAAAATAGATGTCCATCA
GTGACATCAATCAAAGTTCCAGATAATATTGATACTCATAAAATTATAAGTTATGCGATG
AACAAATATAAAGTTGAAATTGGTAATGGTGTGGGAATGACATTGGGTAAAATTTTCAGA
ATCGGTCTTATGGGAGTAAACTGCAAAGATGAGCTTGCAGAGCGAGTGGCAAATATTCTC
ATCGAAGCCATAAGAGCAATTGAAAATGAAAAGGTTGTATCAAAGATTTAA

>g4211.t5 Gene=g4211 Length=336
MDVSKPDNFKVSLDVIEKTMTALECALTNLIEENDVILIVCSGIWGTRAGNIAKRLNANV
KMLYKHVGEQVSLKETRECFRMYKPKIFFMVHGESSTGMIQNNIEDYGNLCREFDCLFIV
DCVITLGCTPLFVDKWKIDIAYTGTQKVLNAPPGISPITFSQRAYDKIVMRKSLVKSYNY
DAILLGEYWNCFPLRPRIYHHTICSSLLYGLREAIAIFIENGGLEASWEKHGKVTRKFHS
ILEKNGLQLFIENAENRCPSVTSIKVPDNIDTHKIISYAMNKYKVEIGNGVGMTLGKIFR
IGLMGVNCKDELAERVANILIEAIRAIENEKVVSKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g4211.t5 Coils Coil Coil 13 33 -
7 g4211.t5 Gene3D G3DSA:3.40.640.10 - 21 221 2.5E-107
6 g4211.t5 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 223 320 2.5E-107
2 g4211.t5 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 10 334 1.8E-87
3 g4211.t5 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 10 334 1.8E-87
9 g4211.t5 PIRSF PIRSF000524 SPT 15 335 5.8E-80
1 g4211.t5 Pfam PF00266 Aminotransferase class-V 21 312 9.0E-32
5 g4211.t5 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 138 158 -
4 g4211.t5 SUPERFAMILY SSF53383 PLP-dependent transferases 19 325 7.58E-67

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:0003824 catalytic activity 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