Gene loci information

Transcript annotation

  • This transcript has been annotated as Heat shock protein 60A.

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_3 g2580 g2580.t5 TTS g2580.t5 18831183 18831183
chr_3 g2580 g2580.t5 isoform g2580.t5 18831919 18833669
chr_3 g2580 g2580.t5 exon g2580.t5.exon1 18831919 18833369
chr_3 g2580 g2580.t5 cds g2580.t5.CDS1 18831921 18833369
chr_3 g2580 g2580.t5 exon g2580.t5.exon2 18833660 18833669
chr_3 g2580 g2580.t5 TSS g2580.t5 18833742 18833742

Sequences

>g2580.t5 Gene=g2580 Length=1461
AATAATTAAGATGTATCGACTTCCGACAGTTTTAAGAGCTGCCACAGCTCGTCAGCTTGC
ATTTCGTACATATGCTAAAGATGTGAAATTTGGTGGAGATGTTCGTGCTATTATGTTGCA
AGGAGTTGACATTTTAGCAGATGCAGTCGCTGTTACTATGGGTCCAAAAGGCCGAAATGT
TATCTTAGAGCAATCATGGGGTTCACCTAAAATCACAAAAGACGGAGTAACAGTTGCTAA
AGGAATTGAATTAAAAGACAAATTCCAAAATATCGGAGCTAAACTTGTACAAGATGTTGC
TAACAATACAAATGAAGAAGCTGGTGATGGCACCACAACAGCAACTGTTCTCGCTCGAGC
AATTGCAAAAGAAGGCTTCGAAAAAATTTCAAAAGGTGCAAATCCAGTTGAAATTCGTCG
TGGAGTTATGATGGCAGTAGATGCTGTGAAAGAAAAACTAAAAACTCTTTCACGACCGGT
CACAACACCAGAAGAAATTGCACAAGTAGCAACTATCTCAGCAAATGGTGATCGAGCAAT
TGGAGATCTCATTAGTGATGCAATGAAACGTGTAGGAAAAGATGGAGTTATCACAGTGAA
AGATGGCAAAACATTAAACGATGAACTTGAAGTAATTGAGGGCATGAAATTTGATCGTGG
TTATATTTCACCATATTTCATTAACTCATCAAAAGGAGCCAAAGTAGAATTTCAAGATGC
TCTCTTGCTTTTATCGGAAAAGAAAATCTCAACAGTTCAAAGTATCATTCCTGCACTTGA
ACTTGCCAATCAACAGAGAAAACCACTTGTCATCATTGCTGAAGATCTTGATGGTGAAGC
ACTTTCAACTTTGGTTGTTAACAGATTAAAGATTGGACTTCAAGTTGCTGCTGTTAAAGC
ACCAGGTTTTGGTGACAACAGAAAATCAACTTTGGCAGACATGGCGATTGCTACTGGCGG
AATTGTTTTCGGAGATGAAGCCAATTTAGTTAAAATTGAAGATGTCCAATTATCAGATTT
TGGTCAAGTTGGTGAAGTTGTCATTACAAAAGACGATACATTGTTGCTCAAAGGAAAAGG
AGACAAGGCTCATGTTGATCAACGCGCACAACAAATTAGAGATCAAATTGCTGAAACCAC
ATCAGAATATGAAAAGGAAAAACTTCAAGAAAGATTAGCCAGATTGTCATCAGGTGTTGC
TGTATTGAAAGTTGGTGGATCAAGTGAAGTTGAAGTCAATGAAAAGAAAGACCGTGTTAA
TGATGCCCTCTGCGCTACTCGTGCTGCAGTTGAAGAAGGAATCGTCCCCGGTGGTGGAAC
TGCACTCTTGAGATGTATTCCAGCATTGAATGATCTTAAAGGATCAAATGCTGATCAAAC
TGTCGGTATTGAAATTGTCAAAAAATCACTCCGCATGCCTTGCCTTCAAATTGCCAAAAA
TACAGGAGTCGATGGGTCAGT

>g2580.t5 Gene=g2580 Length=483
MYRLPTVLRAATARQLAFRTYAKDVKFGGDVRAIMLQGVDILADAVAVTMGPKGRNVILE
QSWGSPKITKDGVTVAKGIELKDKFQNIGAKLVQDVANNTNEEAGDGTTTATVLARAIAK
EGFEKISKGANPVEIRRGVMMAVDAVKEKLKTLSRPVTTPEEIAQVATISANGDRAIGDL
ISDAMKRVGKDGVITVKDGKTLNDELEVIEGMKFDRGYISPYFINSSKGAKVEFQDALLL
LSEKKISTVQSIIPALELANQQRKPLVIIAEDLDGEALSTLVVNRLKIGLQVAAVKAPGF
GDNRKSTLADMAIATGGIVFGDEANLVKIEDVQLSDFGQVGEVVITKDDTLLLKGKGDKA
HVDQRAQQIRDQIAETTSEYEKEKLQERLARLSSGVAVLKVGGSSEVEVNEKKDRVNDAL
CATRAAVEEGIVPGGGTALLRCIPALNDLKGSNADQTVGIEIVKKSLRMPCLQIAKNTGV
DGS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g2580.t5 CDD cd03344 GroEL 23 483 0.0
15 g2580.t5 Coils Coil Coil 366 386 -
12 g2580.t5 Gene3D G3DSA:1.10.560.10 GROEL 26 482 3.5E-203
14 g2580.t5 Gene3D G3DSA:3.30.260.10 GROEL 156 430 3.5E-203
13 g2580.t5 Gene3D G3DSA:3.50.7.10 GroEL 211 393 3.5E-203
2 g2580.t5 PANTHER PTHR45633 60 KDA HEAT SHOCK PROTEIN, MITOCHONDRIAL 18 483 2.1E-236
3 g2580.t5 PANTHER PTHR45633:SF3 60 KDA HEAT SHOCK PROTEIN, MITOCHONDRIAL 18 483 2.1E-236
6 g2580.t5 PRINTS PR00298 60kDa chaperonin signature 46 72 4.1E-67
5 g2580.t5 PRINTS PR00298 60kDa chaperonin signature 102 129 4.1E-67
4 g2580.t5 PRINTS PR00298 60kDa chaperonin signature 287 310 4.1E-67
7 g2580.t5 PRINTS PR00298 60kDa chaperonin signature 370 395 4.1E-67
8 g2580.t5 PRINTS PR00298 60kDa chaperonin signature 418 439 4.1E-67
1 g2580.t5 Pfam PF00118 TCP-1/cpn60 chaperonin family 42 482 2.6E-69
17 g2580.t5 ProSitePatterns PS00296 Chaperonins cpn60 signature. 425 436 -
11 g2580.t5 SUPERFAMILY SSF48592 GroEL equatorial domain-like 22 247 3.53E-58
9 g2580.t5 SUPERFAMILY SSF52029 GroEL apical domain-like 203 396 1.75E-72
10 g2580.t5 SUPERFAMILY SSF48592 GroEL equatorial domain-like 406 482 1.35E-13
18 g2580.t5 TIGRFAM TIGR02348 GroEL: chaperonin GroL 22 483 1.7E-189

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:0005524 ATP binding MF
GO:0042026 protein refolding BP
GO:0016887 ATP hydrolysis activity 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