Gene loci information

Transcript annotation

  • This transcript has been annotated as DnaJ homolog subfamily C member 5-like protein.

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 g11761 g11761.t13 isoform g11761.t13 18272258 18273267
chr_1 g11761 g11761.t13 exon g11761.t13.exon1 18272258 18272434
chr_1 g11761 g11761.t13 cds g11761.t13.CDS1 18272258 18272434
chr_1 g11761 g11761.t13 exon g11761.t13.exon2 18272493 18272784
chr_1 g11761 g11761.t13 cds g11761.t13.CDS2 18272493 18272784
chr_1 g11761 g11761.t13 exon g11761.t13.exon3 18273248 18273267
chr_1 g11761 g11761.t13 cds g11761.t13.CDS3 18273248 18273267
chr_1 g11761 g11761.t13 TSS g11761.t13 18273485 18273485
chr_1 g11761 g11761.t13 TTS g11761.t13 NA NA

Sequences

>g11761.t13 Gene=g11761 Length=489
ATGGATAAAAGAAAGCTATCCACCTCTGGCGATTCTTTATATGAAATTTTGGGACTGCCA
AAGACTTCATCACCAGAAGATATAAAGAAAACTTATAGAAAACTTGCTCTCAAATATCAT
CCAGATAAGAATCCTGAAAATCCTGAGGCTGCAGAAAAATTTAAAGAAGTCAATAGAGCA
CATAGCATATTAAGTGATCAAACTAAACGAAATATTTATGACAACTATGGTTCACTTGGA
TTATATATAGCTGAACAATTTGGTGAAGAAAATGTCAATGCATATTTTGTAGTGACATCA
CCTGCCTGCAAAGCACTTTTCTTGATTTGTTGTATTGCAACCGGTTGTTATTGCTGTTGC
TGTTGCTGCTGCTGCTGTAACTTTTGTTTTGGAAAATATAAACCTACACCACCTCCTGAT
GGCGACTATCATCATCTTAATGTAATTATAACCTTTTTATTTAAATTACTTTTATTATAT
TTTGAAAAA

>g11761.t13 Gene=g11761 Length=163
MDKRKLSTSGDSLYEILGLPKTSSPEDIKKTYRKLALKYHPDKNPENPEAAEKFKEVNRA
HSILSDQTKRNIYDNYGSLGLYIAEQFGEENVNAYFVVTSPACKALFLICCIATGCYCCC
CCCCCCNFCFGKYKPTPPPDGDYHHLNVIITFLFKLLLLYFEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g11761.t13 CDD cd06257 DnaJ 14 66 4.74948E-27
8 g11761.t13 Gene3D G3DSA:1.10.287.110 - 1 103 2.2E-35
2 g11761.t13 PANTHER PTHR44027 DNAJ HOMOLOG SUBFAMILY C MEMBER 5 HOMOLOG 2 147 8.1E-75
4 g11761.t13 PRINTS PR00625 DnaJ domain signature 14 32 6.5E-26
3 g11761.t13 PRINTS PR00625 DnaJ domain signature 32 47 6.5E-26
6 g11761.t13 PRINTS PR00625 DnaJ domain signature 49 69 6.5E-26
5 g11761.t13 PRINTS PR00625 DnaJ domain signature 69 88 6.5E-26
1 g11761.t13 Pfam PF00226 DnaJ domain 13 74 5.5E-28
9 g11761.t13 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 104 -
13 g11761.t13 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 105 131 -
11 g11761.t13 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 132 142 -
12 g11761.t13 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 143 161 -
10 g11761.t13 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 162 163 -
18 g11761.t13 ProSitePatterns PS00636 Nt-dnaJ domain signature. 54 73 -
19 g11761.t13 ProSiteProfiles PS50076 dnaJ domain profile. 12 77 23.704
17 g11761.t13 SMART SM00271 dnaj_3 11 69 2.8E-28
7 g11761.t13 SUPERFAMILY SSF46565 Chaperone J-domain 12 100 1.09E-29
16 g11761.t13 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 106 128 -
15 g11761.t13 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 143 161 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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