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.t8 TSS g16910.t8 11693866 11693866
chr_4 g16910 g16910.t8 isoform g16910.t8 11694143 11695549
chr_4 g16910 g16910.t8 exon g16910.t8.exon1 11694143 11694424
chr_4 g16910 g16910.t8 exon g16910.t8.exon2 11694690 11694871
chr_4 g16910 g16910.t8 cds g16910.t8.CDS1 11694710 11694871
chr_4 g16910 g16910.t8 exon g16910.t8.exon3 11694932 11695549
chr_4 g16910 g16910.t8 cds g16910.t8.CDS2 11694932 11695549
chr_4 g16910 g16910.t8 TTS g16910.t8 11695717 11695717

Sequences

>g16910.t8 Gene=g16910 Length=1082
ATGCATCCAGATAAGAACAAAGATGATCCACAAGCATCAGAGAAATTTGCAGATTTGTCA
GCTGCTTATGAGATTTTAAGTGATGAAGATAAAAGAAAATTGTATGATCGATGTGGAGAA
GGTAAGACTCAAAATAGAAGGAAAAATTTGGAATTCTAAGATTGTTAAATATTTGCTGTG
TTTTAAAAATAATTTTCAAGTTTTTAGTCAATTTCATCTTTTAATTAAACACGAAATTTA
TCAAAAACTTTCTAGAATTTTTTAAAATTTTTAAGTAATCAGAATGCGTCAAAAAAGAAG
GAATGTTTGACAACAATGGAATGGATCCATTTGCATCATTCTTTGGTGATTTTGGATTCA
ACTTTGGTGGACAAGAACATCGACAAGAAGTTCATAAAGGTGCAAATATTGTCGTTGATT
TGTTTGCAAGTTTGGAAGAAATTTATACAGGAAATTTTGTAGAGATAACACGAAATAAAC
CAATACTTAAACCAGCAGCAGGAACACGTAAATGCAATTGTCGTCAAGAAATGGTGACAA
GAAATCTTGGTCCAGGTCGATTCCAAATGATGCAACAAACAGTCTGTGATGAATGTCCAA
ATGTAAAACTTGTTAATGAAGAGCGAATTCTTGAAGTTGAAATTGAAACTGGAGTTCGTG
ATGGACATGAAGAAAGATTTGTTGCAGAAGGTGAGCCACATATGGATGGTGAACCTGGTG
ATTTAGTGCTCAGAATTAAACAAATGCCACATCCAGTATTTGAAAGAAGAGGTGATGATT
TATACACAAATGTTACAATTAGTCTACAAGATGCTTTGACTGGTTTTACAATGGATATTA
CACATCTTGATGGCCATAAAGTTAACATTGTAAGAGAAAAAGTTACATGGCCTGGTGCAC
GTATTAGAAAGAAGGGTGAAGGCATGCCAAATTATGAAAACAACAATCTTTTTGGAACTC
TTTTCATCACATTTGATGTTGAATTCCCAAAACAAGACTTTAGTGAAGAACAGAAAGAAA
AATTGAAAGAAATTTTGGCACAAAAATCTAACAATAAAGTTTATAATGGTCTGCGGATGT
AA

>g16910.t8 Gene=g16910 Length=259
MFDNNGMDPFASFFGDFGFNFGGQEHRQEVHKGANIVVDLFASLEEIYTGNFVEITRNKP
ILKPAAGTRKCNCRQEMVTRNLGPGRFQMMQQTVCDECPNVKLVNEERILEVEIETGVRD
GHEERFVAEGEPHMDGEPGDLVLRIKQMPHPVFERRGDDLYTNVTISLQDALTGFTMDIT
HLDGHKVNIVREKVTWPGARIRKKGEGMPNYENNNLFGTLFITFDVEFPKQDFSEEQKEK
LKEILAQKSNNKVYNGLRM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g16910.t8 CDD cd10747 DnaJ_C 34 230 6.49528E-47
7 g16910.t8 Coils Coil Coil 231 251 -
5 g16910.t8 Gene3D G3DSA:2.60.260.20 Urease metallochaperone UreE 23 148 2.2E-19
6 g16910.t8 Gene3D G3DSA:2.60.260.20 Urease metallochaperone UreE 149 256 7.5E-30
2 g16910.t8 PANTHER PTHR44298 DNAJ HOMOLOG SUBFAMILY B MEMBER 11 5 258 3.4E-115
1 g16910.t8 Pfam PF01556 DnaJ C terminal domain 37 229 4.1E-36
4 g16910.t8 SUPERFAMILY SSF49493 HSP40/DnaJ peptide-binding domain 32 151 7.46E-13
3 g16910.t8 SUPERFAMILY SSF49493 HSP40/DnaJ peptide-binding domain 152 239 1.44E-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

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