General information for g5647.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5647 is located on chr_2: 10882166..10884280 (+ strand)
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.t2 | isoform | g5647.t2 | 10872870 | 10882810 |
| chr_2 | g5647 | g5647.t2 | exon | g5647.t2.exon1 | 10872870 | 10872876 |
| chr_2 | g5647 | g5647.t2 | exon | g5647.t2.exon2 | 10879971 | 10880093 |
| chr_2 | g5647 | g5647.t2 | exon | g5647.t2.exon3 | 10880615 | 10882810 |
| chr_2 | g5647 | g5647.t2 | cds | g5647.t2.CDS1 | 10880642 | 10882810 |
| chr_2 | g5647 | g5647.t2 | TTS | g5647.t2 | 10882977 | 10882977 |
| chr_2 | g5647 | g5647.t2 | TSS | g5647.t2 | NA | NA |
Sequences
>g5647.t2 Gene=g5647 Length=2326
AAAAAAATATTTTCAAGTGTCAAGCAATAAACGCGTATAAATTATTGAAAGTGAAAGCAG
TAAACCAAAGTTGAATTTTTTGAAAAATAATTCGATTGAAAAATTTATGAAAGTACAATA
AAGTACCAAAATAAACCAAAGTTCTGACTTTCTAAAAATGAATATGAACAAGGGTGATAA
TAAAGAGAAAATGGGAGGAAAATTGACTCATGTTGAATTAGAAAGTACTGAAGGTGGAAA
AGAAAAGTTGACTCATGTTGAAATACAAGGCACTGGAGGTGGAAAAGGAAGTGATGAAAA
GTGTCCAGAAATGAAAGGTGATGTTCAAAAAACAAGCTCTGAAAGCAAAATTCAAGGTCA
TTCTGGTATGATGCAAGGAATGAAAGGTGGCTCACAAGGAAAATGTCCAACAAGAGAATG
CAAGGAATTAAAAGGAAAAGTTGAGAAAGCTAGCTCAGAACATAAGGATAAGAATCAAGC
TCATTCCGAATTTATGAAAGAAATGGAGAAAAAAGGAAACAATGGAAAATGTCCAGCTCG
TGATTGTCCTAAAATGAAGGAAAAGTTTCAAAAATTAAGCTCTGACATGATGGGCAAGGA
TAAAGCTCATTCTGATATCAAAGAAGAAATGAATAAAGGAAAAGATGAAAAATGTCCAGG
ACGAGAATGCCCAGAATTAAAAGGAAAAGTCGAGAAAGCAAAGTCTGAAGGAAACATTCA
AGCTCATTCTGATATGATGCAAGGAAGAGGAAAAGGCACAGAAGGAAAATGTCCTGCAAG
AGAATGTCCAGAATTGAAGGAAAAAGTCGAGAAAGCAAGTTCTGAGCATAAAGACAAGCA
ACGAGCTCATTCCGAATGTATGAAAGAAATGGACAAAAAAGGAACTGGTGGAAAATGCCC
AGCCCGTGATTGTCCTGAATTAAAAGAAGACTTTCAAAAAGTAAGTTCAGAAAAGATGAA
CAAAGAAAAAGCTCATTCAGATTTCAAACAAGAAATGGAAAAAGGAAGAGATGACAAATG
TAAAGCTCGTGAATGTCCAGAATTAAAATTAAATGTTGAGAAAGCCAACACTCAAGGAAA
AGATCAACATCAAGCTCATACAGAATTTATGCAAGGAATGGGAAAGGGCACAGAAGGAAA
ATGCCCTGGTAAAGATTGCCCAGAAATGAAAGGAAAGATTGAAGGCCAGCATCATGAACA
GCACCATGGACAACATCATGGAGAGCATCATGGAGAACACCATGGACAACATCATGGACA
ACATCATGGAGAGCATCATGGACAACATCATGGAGAGCATCATGGACAACATCATGGACA
ACATCATGGAGAACACCATGGACAACATCATGAACAGCATCATGGACAACATCATGGAGA
ACACCATGAACAACATCATGGAGAACACCATGGACAACATCATGGAGAGCATCATAAGCA
AAGTAGTGATCATCATATTGAAATGAAAAGTCCATCAGTAGATTTTGATAATTTGAAGAA
AGTAATTGAAGAAAGATCTAGTGAGGGAAAAGGACATTCTGATTTTAAGCACGATGTTGA
AAAAGGAGGTTCAAAAAGAATAGGAGAAGAAGATCATCAAGAATTAGGATCTGAAGGTAA
AGGTCATGGCAAGCAACATTCTGATACTAGAAAGCACATGCAGGATCTTAGCTATGGTCA
TGGTAAGGAACATTCGGAATCACAAAAAGGCGAACATATGGGTTTTCATCATAGAGGACA
TGGCAAGGAACATTTTGACTCTAAAAGAGGCGATAAAATGGATTCTGAAAGAAAACGTCA
TGAAAAAGAATGCCGTGAAAAAGAATGTCGTCATCATCATAAGAAACAAGGAAAGGACGT
AAAATGGAGAGACTGGAGTGGTGGTGAATTAGCTGAAAGACGTCCACACTTCCCTTGGAA
TTGGATGCAAAATTATCATCGTCGTCGTCCAGCAAAAACACCTGACGACTTTGAAGTTTC
TCTCAACGTTGAAGCATTCAAACCTGAGGATATTTCTGTAAAGGTCAGAGGTCGTGAAAT
ATTGATCGAAGCTAAACATGAAGAAAAGGAAGAAGATGTTGGATTTGTATCTCGTCATTT
TACTCGCAGATATCTTCTTTCTGATGAATTTGATGTTGAATCAGTTGCAACATTCTTAAC
ACATAATGGAAAAATGACAATTAGAGCAAATAGACCAAAACCAGAAGGTCAAAAGACTCA
TCGTGAAGTTCCTATTCAACATGTTGCTTCAGAATCTGATTCTTCTTCTGATGAAGATGA
ACACCTTGAGCATATGGTCAAGGAACCGCAATCCTATGGAGTTTAA
>g5647.t2 Gene=g5647 Length=722
MNMNKGDNKEKMGGKLTHVELESTEGGKEKLTHVEIQGTGGGKGSDEKCPEMKGDVQKTS
SESKIQGHSGMMQGMKGGSQGKCPTRECKELKGKVEKASSEHKDKNQAHSEFMKEMEKKG
NNGKCPARDCPKMKEKFQKLSSDMMGKDKAHSDIKEEMNKGKDEKCPGRECPELKGKVEK
AKSEGNIQAHSDMMQGRGKGTEGKCPARECPELKEKVEKASSEHKDKQRAHSECMKEMDK
KGTGGKCPARDCPELKEDFQKVSSEKMNKEKAHSDFKQEMEKGRDDKCKARECPELKLNV
EKANTQGKDQHQAHTEFMQGMGKGTEGKCPGKDCPEMKGKIEGQHHEQHHGQHHGEHHGE
HHGQHHGQHHGEHHGQHHGEHHGQHHGQHHGEHHGQHHEQHHGQHHGEHHEQHHGEHHGQ
HHGEHHKQSSDHHIEMKSPSVDFDNLKKVIEERSSEGKGHSDFKHDVEKGGSKRIGEEDH
QELGSEGKGHGKQHSDTRKHMQDLSYGHGKEHSESQKGEHMGFHHRGHGKEHFDSKRGDK
MDSERKRHEKECREKECRHHHKKQGKDVKWRDWSGGELAERRPHFPWNWMQNYHRRRPAK
TPDDFEVSLNVEAFKPEDISVKVRGREILIEAKHEEKEEDVGFVSRHFTRRYLLSDEFDV
ESVATFLTHNGKMTIRANRPKPEGQKTHREVPIQHVASESDSSSDEDEHLEHMVKEPQSY
GV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5647.t2 | CDD | cd06526 | metazoan_ACD | 598 | 679 | 3.0041E-26 |
| 10 | g5647.t2 | Coils | Coil | Coil | 88 | 108 | - |
| 11 | g5647.t2 | Coils | Coil | Coil | 210 | 230 | - |
| 9 | g5647.t2 | Gene3D | G3DSA:2.60.40.790 | - | 587 | 712 | 1.8E-24 |
| 21 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 67 | - |
| 16 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 89 | 186 | - |
| 20 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 89 | 249 | - |
| 14 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 202 | 249 | - |
| 18 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 263 | 283 | - |
| 15 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 343 | 547 | - |
| 22 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 343 | 366 | - |
| 13 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 393 | 547 | - |
| 17 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 676 | 722 | - |
| 19 | g5647.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 679 | 715 | - |
| 2 | g5647.t2 | PANTHER | PTHR45640:SF13 | HEAT SHOCK PROTEIN 67B3-RELATED | 558 | 707 | 1.6E-27 |
| 3 | g5647.t2 | PANTHER | PTHR45640 | HEAT SHOCK PROTEIN HSP-12.2-RELATED | 558 | 707 | 1.6E-27 |
| 7 | g5647.t2 | PRINTS | PR00299 | Alpha crystallin signature | 599 | 619 | 4.5E-8 |
| 4 | g5647.t2 | PRINTS | PR00299 | Alpha crystallin signature | 621 | 634 | 4.5E-8 |
| 6 | g5647.t2 | PRINTS | PR00299 | Alpha crystallin signature | 636 | 655 | 4.5E-8 |
| 5 | g5647.t2 | PRINTS | PR00299 | Alpha crystallin signature | 658 | 679 | 4.5E-8 |
| 1 | g5647.t2 | Pfam | PF00011 | Hsp20/alpha crystallin family | 600 | 694 | 5.4E-19 |
| 23 | g5647.t2 | ProSiteProfiles | PS01031 | Small heat shock protein (sHSP) domain profile. | 587 | 694 | 16.093 |
| 8 | g5647.t2 | SUPERFAMILY | SSF49764 | HSP20-like chaperones | 587 | 686 | 2.23E-11 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5647/g5647.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5647.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K19767 (heat shock protein Hsp-16.48/Hsp-16.49)
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.
