Gene loci information

Transcript annotation

  • This transcript has been annotated as DnaJ homolog subfamily C member 3.

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 g9651 g9651.t4 isoform g9651.t4 4481325 4483052
chr_1 g9651 g9651.t4 exon g9651.t4.exon1 4481325 4483052
chr_1 g9651 g9651.t4 cds g9651.t4.CDS1 4481644 4483023
chr_1 g9651 g9651.t4 TSS g9651.t4 4483664 4483664
chr_1 g9651 g9651.t4 TTS g9651.t4 NA NA

Sequences

>g9651.t4 Gene=g9651 Length=1728
CAACATCTGAGGTCGAGAGACATTTAGAAATGGGAAGAGACTTTTTGGCAAGAGGTCAAT
TAGGGGATGCACTTTCTCATTATCATGCAGCTGTTGATGGAGACAATAGAAATTATCTCA
CATATTTCAAACGTGCCACTGTATATTTGGCACTTGGAAAAGCTAAACTTGCGATTGGTG
ATCTTGATCGTGCACTCGAATTAAAGCCTGATTTTACTACAGCAAGACAACAGCGTGGAT
CTGTTTATTTGAAAATGGGTGACTATTATAATGCTGAAAGAGATTTATATGATGTTTTAC
AAGAGGATCCAATGAATGAAGAATCTCGTTATCTGTTTGATCGAATCACACCTGCACGAC
AGCAAATTGATTTAGTTCATGATGTCATTACACAAGGCGATCATCAATCAGCAGTTGCGC
TTTTAACACAACTTTTGGAAATATCACCTTGGAGTCCGGAACTTCGAGAGTTAAGAGCAC
AATCAAATTTAGCAATAGGTGATCGGCTTGCTGCAGTATCAGATTTTAGATCAGTAAATA
GATTAATGCAAGATGGTTCAGATGATTTAACAACGCACATATTTAAATTAGCGGAGCTAC
TTTATAATCTTGGACATGCAGCTGATGCACTTAAAGAAATTCGTGAGTGCTTAAAACTTG
ATCCAGAACATAAATTATGCTTCCCATTTTACAAAAGAGTGAAGAAAATTGACAAGTTCC
TTAATGACGCTGAGACTCATCGCGAGAATAAAAATTATCAAGGTTGCATATCATCTGCCG
AAAAGATTAAGAAAAATGAAAAAGATGTGCAAATGATTATATTTAGCGCCAATCAATACC
TCTGTAGTTGTAGTGTTAAGAATGATAAATATACTGATGCCTTGACGTACTGTAATGAAG
CTTTAAAAATTGAAAAAGATCCCAATATTCTCTGTGATCTTGCCGAAGCCCTCATTGGCG
AAGAAATGTATGATGATGCCATAAGAAGTTATCAAGATGCACTCGATTTTGATGAAAATT
CACAGAGAGCAAAAGAGGGAATTGAGAGAGCCAAAAGACTGCAAAAGCAAGCCGAAAAAC
GAGATTATTATAAAATCCTCGGTGTGTCAAGATCAGCAACAACTAAAGAAATTACAAAAG
CATATAGAAAGATGGCTCAAAAATGGCATCCTGATAATTTTGCATCAAATGAGAGTGAAA
GAAAAATTGCAGAAAAGAAATTTATTGATATAGCAGCTGCTAAAGAAGTTCTCACAGATC
CTGAAAAGAGAGCACAGTTTGATAATGGTGAAGATCCACTAGATCCCGAAGCAAAATCAC
AAGGCTTTAGAGGGGGAAATCCTTTTGCTAATTTTCATCAGTTTCATCAAGGCGGTAGTC
CTTTTCAATTTAAATTTCATTTCTCATAAAAATGAGAAAAGTAATAGGTTGTTGATGAAC
TTTTTTGATATTGTTTTTCTATTTGCAAGCCATCATCAATTTATCTACCTTTGCAAGTAG
TATACTACAAATTAATTTTTTTTTACAAATTTGTAATACAGTCACACGTGATTATTTATA
TTCTTTTCTCTTTATTGTTAAGTTTAAATAAAATAGTAAACCTAAAGCGTGCATGTAAAA
GATGACCGAATTGAATCCAGAAATTGTAAATAAAAAGAAAATTTAATTAATTCACAACAT
GATTAATTGAACGATTTATTTCATAAGATTTTATAATTTTCAGGAATT

>g9651.t4 Gene=g9651 Length=459
MGRDFLARGQLGDALSHYHAAVDGDNRNYLTYFKRATVYLALGKAKLAIGDLDRALELKP
DFTTARQQRGSVYLKMGDYYNAERDLYDVLQEDPMNEESRYLFDRITPARQQIDLVHDVI
TQGDHQSAVALLTQLLEISPWSPELRELRAQSNLAIGDRLAAVSDFRSVNRLMQDGSDDL
TTHIFKLAELLYNLGHAADALKEIRECLKLDPEHKLCFPFYKRVKKIDKFLNDAETHREN
KNYQGCISSAEKIKKNEKDVQMIIFSANQYLCSCSVKNDKYTDALTYCNEALKIEKDPNI
LCDLAEALIGEEMYDDAIRSYQDALDFDENSQRAKEGIERAKRLQKQAEKRDYYKILGVS
RSATTKEITKAYRKMAQKWHPDNFASNESERKIAEKKFIDIAAAKEVLTDPEKRAQFDNG
EDPLDPEAKSQGFRGGNPFANFHQFHQGGSPFQFKFHFS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g9651.t4 CDD cd06257 DnaJ 352 410 2.29904E-17
13 g9651.t4 Coils Coil Coil 331 351 -
11 g9651.t4 Gene3D G3DSA:1.25.40.10 - 1 349 1.3E-89
12 g9651.t4 Gene3D G3DSA:1.10.287.110 - 350 457 8.6E-27
4 g9651.t4 PANTHER PTHR44140:SF1 DNAJ (HSP40) HOMOLOG, SUBFAMILY C, MEMBER 3B 1 458 3.3E-138
5 g9651.t4 PANTHER PTHR44140 LD25575P 1 458 3.3E-138
8 g9651.t4 PRINTS PR00625 DnaJ domain signature 354 372 2.0E-15
6 g9651.t4 PRINTS PR00625 DnaJ domain signature 372 387 2.0E-15
7 g9651.t4 PRINTS PR00625 DnaJ domain signature 393 413 2.0E-15
1 g9651.t4 Pfam PF13432 Tetratricopeptide repeat 2 61 6.5E-4
3 g9651.t4 Pfam PF13181 Tetratricopeptide repeat 185 214 0.027
2 g9651.t4 Pfam PF00226 DnaJ domain 352 418 2.0E-22
27 g9651.t4 ProSiteProfiles PS50293 TPR repeat region circular profile. 1 214 26.676
24 g9651.t4 ProSiteProfiles PS50005 TPR repeat profile. 29 62 9.381
21 g9651.t4 ProSiteProfiles PS50005 TPR repeat profile. 63 96 9.116
23 g9651.t4 ProSiteProfiles PS50005 TPR repeat profile. 109 142 5.576
22 g9651.t4 ProSiteProfiles PS50005 TPR repeat profile. 181 214 8.408
25 g9651.t4 ProSiteProfiles PS50005 TPR repeat profile. 298 331 8.526
26 g9651.t4 ProSiteProfiles PS50293 TPR repeat region circular profile. 298 331 8.957
20 g9651.t4 ProSiteProfiles PS50076 dnaJ domain profile. 352 421 19.368
17 g9651.t4 SMART SM00028 tpr_5 29 62 0.0019
15 g9651.t4 SMART SM00028 tpr_5 63 96 0.13
16 g9651.t4 SMART SM00028 tpr_5 181 214 16.0
18 g9651.t4 SMART SM00028 tpr_5 298 331 0.022
19 g9651.t4 SMART SM00271 dnaj_3 351 413 1.6E-25
9 g9651.t4 SUPERFAMILY SSF48452 TPR-like 6 331 8.46E-27
10 g9651.t4 SUPERFAMILY SSF46565 Chaperone J-domain 346 457 1.7E-27

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:0005515 protein binding MF

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