Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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_2 g5647 g5647.t26 TSS g5647.t26 10879963 10879963
chr_2 g5647 g5647.t26 isoform g5647.t26 10880022 10882810
chr_2 g5647 g5647.t26 exon g5647.t26.exon1 10880022 10880093
chr_2 g5647 g5647.t26 exon g5647.t26.exon2 10880615 10881193
chr_2 g5647 g5647.t26 TTS g5647.t26 10880810 10880810
chr_2 g5647 g5647.t26 exon g5647.t26.exon3 10881246 10882810
chr_2 g5647 g5647.t26 cds g5647.t26.CDS1 10881353 10882810

Sequences

>g5647.t26 Gene=g5647 Length=2216
AGTAAACCAAAGTTGAATTTTTTGAAAAATAATTCGATTGAAAAATTTATGAAAGTACAA
TAAAGTACCAAAATAAACCAAAGTTCTGACTTTCTAAAAATGAATATGAACAAGGGTGAT
AATAAAGAGAAAATGGGAGGAAAATTGACTCATGTTGAATTAGAAAGTACTGAAGGTGGA
AAAGAAAAGTTGACTCATGTTGAAATACAAGGCACTGGAGGTGGAAAAGGAAGTGATGAA
AAGTGTCCAGAAATGAAAGGTGATGTTCAAAAAACAAGCTCTGAAAGCAAAATTCAAGGT
CATTCTGGTATGATGCAAGGAATGAAAGGTGGCTCACAAGGAAAATGTCCAACAAGAGAA
TGCAAGGAATTAAAAGGAAAAGTTGAGAAAGCTAGCTCAGAACATAAGGATAAGAATCAA
GCTCATTCCGAATTTATGAAAGAAATGGAGAAAAAAGGAAACAATGGAAAATGTCCAGCT
CGTGATTGTCCTAAAATGAAGGAAAAGTTTCAAAAATTAAGCTCTGACATGATGGGCAAG
GATAAAGCTCATTCTGATATCAAAGAAGAAATGAATAAAGGAAAAGATGAAAAATGTCCA
GGACGAGAATGCCCAGAATTAAAAGGAAAAGTCGAGAAAGCAAAGTCTGAAAAGGAAAAT
GTCCTGCAAGAGAATGTCCAGAATTGAAGGAAAAAGTCGAGAAAGCAAGTTCTGAGCATA
AAGACAAGCAACGAGCTCATTCCGAATGTATGAAAGAAATGGACAAAAAAGGAACTGGTG
GAAAATGCCCAGCCCGTGATTGTCCTGAATTAAAAGAAGACTTTCAAAAAGTAAGTTCAG
AAAAGATGAACAAAGAAAAAGCTCATTCAGATTTCAAACAAGAAATGGAAAAAGGAAGAG
ATGACAAATGTAAAGCTCGTGAATGTCCAGAATTAAAATTAAATGTTGAGAAAGCCAACA
CTCAAGGAAAAGATCAACATCAAGCTCATACAGAATTTATGCAAGGAATGGGAAAGGGCA
CAGAAGGAAAATGCCCTGGTAAAGATTGCCCAGAAATGAAAGGAAAGATTGAAGGCCAGC
ATCATGAACAGCACCATGGACAACATCATGGAGAGCATCATGGAGAACACCATGGACAAC
ATCATGGACAACATCATGGAGAGCATCATGGACAACATCATGGAGAGCATCATGGACAAC
ATCATGGACAACATCATGGAGAACACCATGGACAACATCATGAACAGCATCATGGACAAC
ATCATGGAGAACACCATGAACAACATCATGGAGAACACCATGGACAACATCATGGAGAGC
ATCATAAGCAAAGTAGTGATCATCATATTGAAATGAAAAGTCCATCAGTAGATTTTGATA
ATTTGAAGAAAGTAATTGAAGAAAGATCTAGTGAGGGAAAAGGACATTCTGATTTTAAGC
ACGATGTTGAAAAAGGAGGTTCAAAAAGAATAGGAGAAGAAGATCATCAAGAATTAGGAT
CTGAAGGTAAAGGTCATGGCAAGCAACATTCTGATACTAGAAAGCACATGCAGGATCTTA
GCTATGGTCATGGTAAGGAACATTCGGAATCACAAAAAGGCGAACATATGGGTTTTCATC
ATAGAGGACATGGCAAGGAACATTTTGACTCTAAAAGAGGCGATAAAATGGATTCTGAAA
GAAAACGTCATGAAAAAGAATGCCGTGAAAAAGAATGTCGTCATCATCATAAGAAACAAG
GAAAGGACGTAAAATGGAGAGACTGGAGTGGTGGTGAATTAGCTGAAAGACGTCCACACT
TCCCTTGGAATTGGATGCAAAATTATCATCGTCGTCGTCCAGCAAAAACACCTGACGACT
TTGAAGTTTCTCTCAACGTTGAAGCATTCAAACCTGAGGATATTTCTGTAAAGGTCAGAG
GTCGTGAAATATTGATCGAAGCTAAACATGAAGAAAAGGAAGAAGATGTTGGATTTGTAT
CTCGTCATTTTACTCGCAGATATCTTCTTTCTGATGAATTTGATGTTGAATCAGTTGCAA
CATTCTTAACACATAATGGAAAAATGACAATTAGAGCAAATAGACCAAAACCAGAAGGTC
AAAAGACTCATCGTGAAGTTCCTATTCAACATGTTGCTTCAGAATCTGATTCTTCTTCTG
ATGAAGATGAACACCTTGAGCATATGGTCAAGGAACCGCAATCCTATGGAGTTTAA

>g5647.t26 Gene=g5647 Length=485
MDKKGTGGKCPARDCPELKEDFQKVSSEKMNKEKAHSDFKQEMEKGRDDKCKARECPELK
LNVEKANTQGKDQHQAHTEFMQGMGKGTEGKCPGKDCPEMKGKIEGQHHEQHHGQHHGEH
HGEHHGQHHGQHHGEHHGQHHGEHHGQHHGQHHGEHHGQHHEQHHGQHHGEHHEQHHGEH
HGQHHGEHHKQSSDHHIEMKSPSVDFDNLKKVIEERSSEGKGHSDFKHDVEKGGSKRIGE
EDHQELGSEGKGHGKQHSDTRKHMQDLSYGHGKEHSESQKGEHMGFHHRGHGKEHFDSKR
GDKMDSERKRHEKECREKECRHHHKKQGKDVKWRDWSGGELAERRPHFPWNWMQNYHRRR
PAKTPDDFEVSLNVEAFKPEDISVKVRGREILIEAKHEEKEEDVGFVSRHFTRRYLLSDE
FDVESVATFLTHNGKMTIRANRPKPEGQKTHREVPIQHVASESDSSSDEDEHLEHMVKEP
QSYGV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g5647.t26 CDD cd06526 metazoan_ACD 361 442 5.78863E-26
8 g5647.t26 Gene3D G3DSA:2.60.40.790 - 349 475 8.7E-25
12 g5647.t26 MobiDBLite mobidb-lite consensus disorder prediction 25 51 -
13 g5647.t26 MobiDBLite mobidb-lite consensus disorder prediction 106 309 -
15 g5647.t26 MobiDBLite mobidb-lite consensus disorder prediction 106 129 -
11 g5647.t26 MobiDBLite mobidb-lite consensus disorder prediction 156 309 -
10 g5647.t26 MobiDBLite mobidb-lite consensus disorder prediction 439 485 -
14 g5647.t26 MobiDBLite mobidb-lite consensus disorder prediction 442 478 -
2 g5647.t26 PANTHER PTHR45640 HEAT SHOCK PROTEIN HSP-12.2-RELATED 287 471 6.9E-28
5 g5647.t26 PRINTS PR00299 Alpha crystallin signature 362 382 1.1E-8
6 g5647.t26 PRINTS PR00299 Alpha crystallin signature 384 397 1.1E-8
4 g5647.t26 PRINTS PR00299 Alpha crystallin signature 399 418 1.1E-8
3 g5647.t26 PRINTS PR00299 Alpha crystallin signature 421 442 1.1E-8
1 g5647.t26 Pfam PF00011 Hsp20/alpha crystallin family 363 457 2.9E-19
16 g5647.t26 ProSiteProfiles PS01031 Small heat shock protein (sHSP) domain profile. 350 457 16.093
7 g5647.t26 SUPERFAMILY SSF49764 HSP20-like chaperones 350 449 1.19E-11

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5647/g5647.t26; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5647.t26.fa.iupred3.txt does not exist

GO terms from InterProScan

There are no GO annotations for this transcript.

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