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.t4 isoform g2580.t4 18831173 18833369
chr_3 g2580 g2580.t4 exon g2580.t4.exon1 18831173 18831758
chr_3 g2580 g2580.t4 TTS g2580.t4 18831183 18831183
chr_3 g2580 g2580.t4 cds g2580.t4.CDS1 18831603 18831758
chr_3 g2580 g2580.t4 exon g2580.t4.exon2 18831816 18831919
chr_3 g2580 g2580.t4 cds g2580.t4.CDS2 18831816 18831919
chr_3 g2580 g2580.t4 exon g2580.t4.exon3 18831995 18833369
chr_3 g2580 g2580.t4 cds g2580.t4.CDS3 18831995 18833369
chr_3 g2580 g2580.t4 TSS g2580.t4 18833742 18833742

Sequences

>g2580.t4 Gene=g2580 Length=2065
ATGTATCGACTTCCGACAGTTTTAAGAGCTGCCACAGCTCGTCAGCTTGCATTTCGTACA
TATGCTAAAGATGTGAAATTTGGTGGAGATGTTCGTGCTATTATGTTGCAAGGAGTTGAC
ATTTTAGCAGATGCAGTCGCTGTTACTATGGGTCCAAAAGGCCGAAATGTTATCTTAGAG
CAATCATGGGGTTCACCTAAAATCACAAAAGACGGAGTAACAGTTGCTAAAGGAATTGAA
TTAAAAGACAAATTCCAAAATATCGGAGCTAAACTTGTACAAGATGTTGCTAACAATACA
AATGAAGAAGCTGGTGATGGCACCACAACAGCAACTGTTCTCGCTCGAGCAATTGCAAAA
GAAGGCTTCGAAAAAATTTCAAAAGGTGCAAATCCAGTTGAAATTCGTCGTGGAGTTATG
ATGGCAGTAGATGCTGTGAAAGAAAAACTAAAAACTCTTTCACGACCGGTCACAACACCA
GAAGAAATTGCACAAGTAGCAACTATCTCAGCAAATGGTGATCGAGCAATTGGAGATCTC
ATTAGTGATGCAATGAAACGTGTAGGAAAAGATGGAGTTATCACAGTGAAAGATGGCAAA
ACATTAAACGATGAACTTGAAGTAATTGAGGGCATGAAATTTGATCGTGGTTATATTTCA
CCATATTTCATTAACTCATCAAAAGGAGCCAAAGTAGAATTTCAAGATGCTCTCTTGCTT
TTATCGGAAAAGAAAATCTCAACAGTTCAAAGTATCATTCCTGCACTTGAACTTGCCAAT
CAACAGAGAAAACCACTTGTCATCATTGCTGAAGATCTTGATGGTGAAGCACTTTCAACT
TTGGTTGTTAACAGATTAAAGATTGGACTTCAAGTTGCTGCTGTTAAAGCACCAGGTTTT
GGTGACAACAGAAAATCAACTTTGGCAGACATGGCGATTGCTACTGGCGGAATTGTTTTC
GGAGATGAAGCCAATTTAGTTAAAATTGAAGATGTCCAATTATCAGATTTTGGTCAAGTT
GGTGAAGTTGTCATTACAAAAGACGATACATTGTTGCTCAAAGGAAAAGGAGACAAGGCT
CATGTTGATCAACGCGCACAACAAATTAGAGATCAAATTGCTGAAACCACATCAGAATAT
GAAAAGGAAAAACTTCAAGAAAGATTAGCCAGATTGTCATCAGGTGTTGCTGTATTGAAA
GTTGGTGGATCAAGTGAAGTTGAAGTCAATGAAAAGAAAGACCGTGTTAATGATGCCCTC
TGCGCTACTCGTGCTGCAGTTGAAGAAGGAATCGTCCCCGGTGGTGGAACTGCACTCTTG
AGATGTATTCCAGCATTGAATGATCTTAAAGGATCAAATGCTGATCAAACTGTCGTTGTT
GTCGCTAAGGTCGAAGAACAGACAGGAGATTTCGGATATGATGCATTAAATAACGAGTAT
GTGAATATGTTTGAAAAGGGTATCATTGATCCAACAAAGGTTGTCCGCACAGCTTTAACT
GATGCAGCTGGTGTTGCTTCATTACTCACAACTGCCGAATGTGTTGTATGTGAGATTCCA
AAAGAAGAACCTGCAAATCCAATGGCCGGTATGGGTGGCATGGGTGGAATGGGAGGTATG
GGAGGAATGATGTAAAGAAATGAAACAAAAGAATATTCCGAAAGCTGCTGCAATTACAAT
AACAATTTAAAATTTAAGTTTTGCATTTAAAATCATTAGTTGATAATAGTTTACTTATGT
TACAAGATTGTGCCCAGTCAAAGAAATGAAAGTTAATTCAGAGAATGTAATATCATAGTC
ATAAGTTTGATAGAAACTGATCATTAGAAAGGCACTTGTTTTTATATTGCCGAGACTGAT
CAAAGAATTATAAGAAAAAACCAATAATTTTAAATTTCTGGATTTAAATCACTCTGGCAG
GTTGTGATTTTTATTCACAAATTTACAAAGTTTTCTCTCGTTCGTATATTAAATTAATGT
ACGTGATAATAACTAATTGTAATTTTTATGAATTTCCATTGAAATGGAAATTGAATAAAA
TAGAAATTTATTACCAAAAAAGTAA

>g2580.t4 Gene=g2580 Length=544
MYRLPTVLRAATARQLAFRTYAKDVKFGGDVRAIMLQGVDILADAVAVTMGPKGRNVILE
QSWGSPKITKDGVTVAKGIELKDKFQNIGAKLVQDVANNTNEEAGDGTTTATVLARAIAK
EGFEKISKGANPVEIRRGVMMAVDAVKEKLKTLSRPVTTPEEIAQVATISANGDRAIGDL
ISDAMKRVGKDGVITVKDGKTLNDELEVIEGMKFDRGYISPYFINSSKGAKVEFQDALLL
LSEKKISTVQSIIPALELANQQRKPLVIIAEDLDGEALSTLVVNRLKIGLQVAAVKAPGF
GDNRKSTLADMAIATGGIVFGDEANLVKIEDVQLSDFGQVGEVVITKDDTLLLKGKGDKA
HVDQRAQQIRDQIAETTSEYEKEKLQERLARLSSGVAVLKVGGSSEVEVNEKKDRVNDAL
CATRAAVEEGIVPGGGTALLRCIPALNDLKGSNADQTVVVVAKVEEQTGDFGYDALNNEY
VNMFEKGIIDPTKVVRTALTDAAGVASLLTTAECVVCEIPKEEPANPMAGMGGMGGMGGM
GGMM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g2580.t4 CDD cd03344 GroEL 23 518 0.0
16 g2580.t4 Coils Coil Coil 366 386 -
12 g2580.t4 Gene3D G3DSA:1.10.560.10 GROEL 26 458 1.1E-192
15 g2580.t4 Gene3D G3DSA:3.30.260.10 GROEL 156 430 1.1E-192
14 g2580.t4 Gene3D G3DSA:3.50.7.10 GroEL 211 393 1.1E-192
13 g2580.t4 Gene3D G3DSA:1.10.560.10 GROEL 459 525 2.9E-23
2 g2580.t4 PANTHER PTHR45633 60 KDA HEAT SHOCK PROTEIN, MITOCHONDRIAL 18 523 9.9E-251
3 g2580.t4 PANTHER PTHR45633:SF3 60 KDA HEAT SHOCK PROTEIN, MITOCHONDRIAL 18 523 9.9E-251
6 g2580.t4 PRINTS PR00298 60kDa chaperonin signature 46 72 5.8E-67
5 g2580.t4 PRINTS PR00298 60kDa chaperonin signature 102 129 5.8E-67
4 g2580.t4 PRINTS PR00298 60kDa chaperonin signature 287 310 5.8E-67
7 g2580.t4 PRINTS PR00298 60kDa chaperonin signature 370 395 5.8E-67
8 g2580.t4 PRINTS PR00298 60kDa chaperonin signature 418 439 5.8E-67
1 g2580.t4 Pfam PF00118 TCP-1/cpn60 chaperonin family 42 463 2.8E-62
18 g2580.t4 ProSitePatterns PS00296 Chaperonins cpn60 signature. 425 436 -
11 g2580.t4 SUPERFAMILY SSF48592 GroEL equatorial domain-like 30 516 2.0E-63
10 g2580.t4 SUPERFAMILY SSF54849 GroEL-intermediate domain like 156 222 2.98E-26
9 g2580.t4 SUPERFAMILY SSF52029 GroEL apical domain-like 203 396 2.25E-72
19 g2580.t4 TIGRFAM TIGR02348 GroEL: chaperonin GroL 22 458 1.1E-179

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

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