Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative FK506-binding protein 59.

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 g5343 g5343.t3 isoform g5343.t3 9023315 9024641
chr_2 g5343 g5343.t3 exon g5343.t3.exon1 9023315 9024072
chr_2 g5343 g5343.t3 exon g5343.t3.exon2 9024133 9024206
chr_2 g5343 g5343.t3 cds g5343.t3.CDS1 9024205 9024206
chr_2 g5343 g5343.t3 exon g5343.t3.exon3 9024271 9024641
chr_2 g5343 g5343.t3 cds g5343.t3.CDS2 9024271 9024553
chr_2 g5343 g5343.t3 TSS g5343.t3 NA NA
chr_2 g5343 g5343.t3 TTS g5343.t3 NA NA

Sequences

>g5343.t3 Gene=g5343 Length=1203
ATCTGTTGAAGGTGAAGCAAGAACTGTGTCAGTCTCAATTTACTTGAATAAAGCATTGTG
CTATCAAAAACTTAATGATTACGATGAAATGAGACGTGTCTGCAATGAAGCATTATCAAT
GGAACCCAAAAATATTAAGGCTCTATATCGACGCGGTCAAGCGTACTTTACTCTTGGAGA
AATTGAAAATGCACTTGCTGATTTTGAAGCAGTTCATGAAATTGAGCCTGAAAACAAAGC
TGCTATTAATCAAATAACTATTTGCAAGCAAAAGATCAAATCGTATGTGGAAGAAGAAAA
GAAACGATATAAAAGTATGCTCTCCAGATATTGTTCTTCTGATGGGTCGGTAAGCGACGA
AAATCAATCATAAAGAAGATGTTCCACAATTAGAAGACCCTTTTGCTAATGTTTCGAAAT
TTGGAGAATGGACGGAGGAAGAAAGATCTCACACTATCACAAAATTTGAGGAAGAAAATC
CGGATGTAATTTTGTGTGATAATGTTTTCTTTAAGGAGGAATTGAAAAATATGTAAGATT
CTCATGGAACATCATTATAATAAATGAATTGTAATTCATTAAACCAAAATAAATTAAAAC
CACAATTTCCGATTAAATTCCTTAATCTTTATTTCTTCTTCAATAGACTTGTGTGTGTAT
GTGTTTTTCCATTAAATTTTCAATACTTTTACACAGAAAAAATCTTCACTTGAAATACTA
TCATATATATATATTGTTCAGAGAAAAAAAATTGTCAAATCTCAATATACATTCATATAT
CATATTTATCTTGTCATAATTATAATAATTAAAAGCTTTTTCACTTGTCAACTTAAATTA
AAGTATCAAGAAATTCTCTTATACTATCGACAGTTTCATATTGGTAGTTAAGAAGAAAAT
GAAATAGAATAGATGCCTAATTAATACAGAATAGTTAATAAATACAAATAGGGATGAGAT
TGTTGTGTATGTATTTTGTGAAAATAAAGTCTTATGAGAAACTAAATGAATAAGAAAATA
TTATTCGAATTCTTTCGTCTAATGAAGCTGCTTGTTATAGAAATAATTCTATGCTTAATG
ATCTACATTAATGAGAAATGTATTAGAGAATGTTTATTTGATAAGATACTACTGAATTTT
CTATATCCTATGGTATACTTAGATACTGTTGTTGCTTGTTGCTGCTGCTGCTTTCTGAGA
GTT

>g5343.t3 Gene=g5343 Length=94
MRRVCNEALSMEPKNIKALYRRGQAYFTLGEIENALADFEAVHEIEPENKAAINQITICK
QKIKSYVEEEKKRYKSMLSRYCSSDGSVSDENQS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g5343.t3 Gene3D G3DSA:1.25.40.10 - 2 87 0.0000000
2 g5343.t3 PANTHER PTHR46423 RNA POLYMERASE II-ASSOCIATED PROTEIN 3 5 75 0.0000000
1 g5343.t3 Pfam PF00515 Tetratricopeptide repeat 17 49 0.0000000
7 g5343.t3 ProSiteProfiles PS50293 TPR repeat region circular profile. 1 49 15.3240000
6 g5343.t3 ProSiteProfiles PS50005 TPR repeat profile. 16 49 11.5940000
4 g5343.t3 SMART SM00028 tpr_5 16 49 0.0000021
3 g5343.t3 SUPERFAMILY SSF48452 TPR-like 4 78 0.0000000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5343/g5343.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5343.t3.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005515 protein 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.

Raw TPM values