Gene loci information

Transcript annotation

  • This transcript has been annotated as DnaJ homolog shv.

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_4 g16910 g16910.t7 TSS g16910.t7 11693866 11693866
chr_4 g16910 g16910.t7 isoform g16910.t7 11694143 11695549
chr_4 g16910 g16910.t7 exon g16910.t7.exon1 11694143 11694263
chr_4 g16910 g16910.t7 cds g16910.t7.CDS1 11694143 11694263
chr_4 g16910 g16910.t7 exon g16910.t7.exon2 11694690 11694865
chr_4 g16910 g16910.t7 cds g16910.t7.CDS2 11694690 11694865
chr_4 g16910 g16910.t7 exon g16910.t7.exon3 11694932 11695549
chr_4 g16910 g16910.t7 cds g16910.t7.CDS3 11694932 11695549
chr_4 g16910 g16910.t7 TTS g16910.t7 11695717 11695717

Sequences

>g16910.t7 Gene=g16910 Length=915
ATGCATCCAGATAAGAACAAAGATGATCCACAAGCATCAGAGAAATTTGCAGATTTGTCA
GCTGCTTATGAGATTTTAAGTGATGAAGATAAAAGAAAATTGTATGATCGATGTGGAGAA
GAATGCGTCAAAAAAGAAGGAATGTTTGACAACAATGGAATGGATCCATTTGCATCATTC
TTTGGTGATTTTGGATTCAACTTTGGTGGACAAGAACATCGACAAGAAGTTCATAAAGGT
GCAAATATTGTCGTTGATTTGTTTGCAAGTTTGGAAGAAATTTATACAGGAAATTTTATA
ACACGAAATAAACCAATACTTAAACCAGCAGCAGGAACACGTAAATGCAATTGTCGTCAA
GAAATGGTGACAAGAAATCTTGGTCCAGGTCGATTCCAAATGATGCAACAAACAGTCTGT
GATGAATGTCCAAATGTAAAACTTGTTAATGAAGAGCGAATTCTTGAAGTTGAAATTGAA
ACTGGAGTTCGTGATGGACATGAAGAAAGATTTGTTGCAGAAGGTGAGCCACATATGGAT
GGTGAACCTGGTGATTTAGTGCTCAGAATTAAACAAATGCCACATCCAGTATTTGAAAGA
AGAGGTGATGATTTATACACAAATGTTACAATTAGTCTACAAGATGCTTTGACTGGTTTT
ACAATGGATATTACACATCTTGATGGCCATAAAGTTAACATTGTAAGAGAAAAAGTTACA
TGGCCTGGTGCACGTATTAGAAAGAAGGGTGAAGGCATGCCAAATTATGAAAACAACAAT
CTTTTTGGAACTCTTTTCATCACATTTGATGTTGAATTCCCAAAACAAGACTTTAGTGAA
GAACAGAAAGAAAAATTGAAAGAAATTTTGGCACAAAAATCTAACAATAAAGTTTATAAT
GGTCTGCGGATGTAA

>g16910.t7 Gene=g16910 Length=304
MHPDKNKDDPQASEKFADLSAAYEILSDEDKRKLYDRCGEECVKKEGMFDNNGMDPFASF
FGDFGFNFGGQEHRQEVHKGANIVVDLFASLEEIYTGNFITRNKPILKPAAGTRKCNCRQ
EMVTRNLGPGRFQMMQQTVCDECPNVKLVNEERILEVEIETGVRDGHEERFVAEGEPHMD
GEPGDLVLRIKQMPHPVFERRGDDLYTNVTISLQDALTGFTMDITHLDGHKVNIVREKVT
WPGARIRKKGEGMPNYENNNLFGTLFITFDVEFPKQDFSEEQKEKLKEILAQKSNNKVYN
GLRM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g16910.t7 CDD cd06257 DnaJ 2 28 1.61308E-9
13 g16910.t7 CDD cd10747 DnaJ_C 145 275 1.01385E-45
11 g16910.t7 Coils Coil Coil 276 296 -
9 g16910.t7 Gene3D G3DSA:1.10.287.110 - 1 73 2.4E-14
10 g16910.t7 Gene3D G3DSA:2.60.260.20 Urease metallochaperone UreE 194 301 1.1E-29
3 g16910.t7 PANTHER PTHR44298 DNAJ HOMOLOG SUBFAMILY B MEMBER 11 1 303 7.5E-135
4 g16910.t7 PRINTS PR00625 DnaJ domain signature 11 31 3.3E-7
5 g16910.t7 PRINTS PR00625 DnaJ domain signature 31 50 3.3E-7
2 g16910.t7 Pfam PF00226 DnaJ domain 1 36 2.8E-12
1 g16910.t7 Pfam PF01556 DnaJ C terminal domain 84 274 2.5E-34
14 g16910.t7 ProSitePatterns PS00636 Nt-dnaJ domain signature. 16 35 -
15 g16910.t7 ProSiteProfiles PS50076 dnaJ domain profile. 1 39 13.785
8 g16910.t7 SUPERFAMILY SSF46565 Chaperone J-domain 1 70 2.36E-15
7 g16910.t7 SUPERFAMILY SSF49493 HSP40/DnaJ peptide-binding domain 78 199 3.01E-12
6 g16910.t7 SUPERFAMILY SSF49493 HSP40/DnaJ peptide-binding domain 197 284 1.96E-22

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:0006457 protein folding BP
GO:0051082 unfolded 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