Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein tumorous imaginal discs, mitochondrial.

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 g5783 g5783.t27 isoform g5783.t27 11921866 11923002
chr_2 g5783 g5783.t27 exon g5783.t27.exon1 11921866 11922011
chr_2 g5783 g5783.t27 cds g5783.t27.CDS1 11921879 11922011
chr_2 g5783 g5783.t27 exon g5783.t27.exon2 11922075 11922406
chr_2 g5783 g5783.t27 cds g5783.t27.CDS2 11922075 11922406
chr_2 g5783 g5783.t27 exon g5783.t27.exon3 11922465 11922528
chr_2 g5783 g5783.t27 cds g5783.t27.CDS3 11922465 11922528
chr_2 g5783 g5783.t27 exon g5783.t27.exon4 11922881 11923002
chr_2 g5783 g5783.t27 cds g5783.t27.CDS4 11922881 11923002
chr_2 g5783 g5783.t27 TTS g5783.t27 11923013 11923013
chr_2 g5783 g5783.t27 TSS g5783.t27 NA NA

Sequences

>g5783.t27 Gene=g5783 Length=664
AGGGCCTTTTGTGATGCGTTCAACATGTCGTTATTGTCAAGGTACGAGGATGTATATAAA
ATATCCATGTATAGAATGTGATGGAAAAGGACAAACAGTGCAACGAAAACGAGTGACAGT
ATCTGTACCACCAGGAGTTGAAAACAATCAGACAGTTCGAATGACAGTTGGAAATAAAGA
GCTTTTTGTGACATTTAAAGTAGAAAAGAGTCGATACTTTAAACGAGATGGAAACGATGT
ACATACTGATGCTGAAATTTCATTATCGCAAGCAGTTCTCGGTGGTACAATTCGAATTCA
AGGTGTTTATGAGGATCAAACCATTCAAATTATGCCTGGAAGCTCATCACATCAAGTAAT
AACACTTAAAGGTAAAGGAATAAAACGTGTTAATTCATCGTCGACTGGAGATCATTACGT
TCATCTTAAAATTGTCATTCCAAAGAAACTAACTGAGAAACAAAAGGCAATCATTCAGGC
ATATGCTGAATTAGAAAAAGATACTCCTGGTCAAATATTTGGAATGACACAAAAAAGTGA
TGGCCTTAAAGAAAGCTACTCAGAGCCAATTGAACTAACAGCGAGAATCCGAGAAGTTTT
AAAAGAAAAGAAAGCCATAGAAGAGAGTACTGATGATGATGTAAAGAAGAGAAATAAAAT
TTGA

>g5783.t27 Gene=g5783 Length=216
MRSTCRYCQGTRMYIKYPCIECDGKGQTVQRKRVTVSVPPGVENNQTVRMTVGNKELFVT
FKVEKSRYFKRDGNDVHTDAEISLSQAVLGGTIRIQGVYEDQTIQIMPGSSSHQVITLKG
KGIKRVNSSSTGDHYVHLKIVIPKKLTEKQKAIIQAYAELEKDTPGQIFGMTQKSDGLKE
SYSEPIELTARIREVLKEKKAIEESTDDDVKKRNKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g5783.t27 CDD cd10747 DnaJ_C 27 146 0.00e+00
7 g5783.t27 Gene3D G3DSA:2.60.260.20 Urease metallochaperone UreE 4 55 1.00e-07
6 g5783.t27 Gene3D G3DSA:2.60.260.20 Urease metallochaperone UreE 64 169 0.00e+00
2 g5783.t27 PANTHER PTHR44145 DNAJ HOMOLOG SUBFAMILY A MEMBER 3, MITOCHONDRIAL 1 180 0.00e+00
3 g5783.t27 PANTHER PTHR44145:SF3 DNAJ HOMOLOG SUBFAMILY A MEMBER 3, MITOCHONDRIAL 1 180 0.00e+00
1 g5783.t27 Pfam PF01556 DnaJ C terminal domain 28 143 0.00e+00
4 g5783.t27 SUPERFAMILY SSF57938 DnaJ/Hsp40 cysteine-rich domain 2 29 6.67e-05
5 g5783.t27 SUPERFAMILY SSF49493 HSP40/DnaJ peptide-binding domain 68 154 0.00e+00

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5783/g5783.t27; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5783.t27.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0006457 protein folding BP
GO:0051082 unfolded 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