Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative DnaJ homolog subfamily C member 1.

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 g11969 g11969.t5 TTS g11969.t5 19962549 19962549
chr_1 g11969 g11969.t5 isoform g11969.t5 19962844 19963298
chr_1 g11969 g11969.t5 exon g11969.t5.exon1 19962844 19963298
chr_1 g11969 g11969.t5 cds g11969.t5.CDS1 19962846 19963298
chr_1 g11969 g11969.t5 TSS g11969.t5 19963384 19963384

Sequences

>g11969.t5 Gene=g11969 Length=455
ATGAAATTACTTTATTTTAGTGCTTTTATATTCCTCACTCAAGTGATATTGCCAGCAAAA
GCATGGGACAACGATGATCTTGAAATTTTCGATCTTGTAGAACTAGTCAATCAGAATTTT
TATGAAATGATGGGATTGAAACAAGATGCTTCATTATCAGAAATAAAAAGAGCCTTCCGT
AATCTTTCGATTATCATGCATCCAGATAAAAATGATGCTCCTGATGCCAATGAAAAATTT
CGAAATTTAGTTGCTGTCTATGAAGTGTTGAAAGATTCCACTAAACGTGAGAAATATGAC
AATGTTCTGAAAAATGGAATGCCTAATTGGCGATCAGCTGTTTATTATTATCGAAAAGCT
CGTAAAATGGGACTTGCTGAGGGCGCGATTCTTCTATTTGTCATCACAACAATTTGCCAA
TATTTTGTTTCATGGGGTGTATATTTAGAAAAAAA

>g11969.t5 Gene=g11969 Length=151
MKLLYFSAFIFLTQVILPAKAWDNDDLEIFDLVELVNQNFYEMMGLKQDASLSEIKRAFR
NLSIIMHPDKNDAPDANEKFRNLVAVYEVLKDSTKREKYDNVLKNGMPNWRSAVYYYRKA
RKMGLAEGAILLFVITTICQYFVSWGVYLEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g11969.t5 CDD cd06257 DnaJ 39 92 5.44211E-17
10 g11969.t5 Gene3D G3DSA:1.10.287.110 - 28 125 1.2E-22
2 g11969.t5 PANTHER PTHR44653 DNAJ HOMOLOG SUBFAMILY C MEMBER 1 8 151 1.5E-68
4 g11969.t5 PRINTS PR00625 DnaJ domain signature 41 59 2.4E-15
6 g11969.t5 PRINTS PR00625 DnaJ domain signature 59 74 2.4E-15
5 g11969.t5 PRINTS PR00625 DnaJ domain signature 75 95 2.4E-15
3 g11969.t5 PRINTS PR00625 DnaJ domain signature 95 114 2.4E-15
1 g11969.t5 Pfam PF00226 DnaJ domain 39 100 2.8E-21
13 g11969.t5 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
14 g11969.t5 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
15 g11969.t5 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 13 -
17 g11969.t5 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 21 -
12 g11969.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 128 -
16 g11969.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 129 149 -
11 g11969.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 150 151 -
22 g11969.t5 ProSitePatterns PS00636 Nt-dnaJ domain signature. 80 99 -
23 g11969.t5 ProSiteProfiles PS50076 dnaJ domain profile. 39 103 18.273
21 g11969.t5 SMART SM00271 dnaj_3 38 95 1.7E-17
7 g11969.t5 SUPERFAMILY SSF46565 Chaperone J-domain 38 133 3.53E-22
9 g11969.t5 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -
19 g11969.t5 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 21 -
8 g11969.t5 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 21 -
20 g11969.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 125 147 -

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

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