General information for g5687.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATPase family protein 2-like protein.
Parent gene
- The parent gene g5687 is located on chr_2: 11257043..11259984 (+ 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 | g5687 | g5687.t1 | TSS | g5687.t1 | 11253733 | 11253733 |
| chr_2 | g5687 | g5687.t1 | isoform | g5687.t1 | 11254688 | 11257043 |
| chr_2 | g5687 | g5687.t1 | exon | g5687.t1.exon1 | 11254688 | 11255057 |
| chr_2 | g5687 | g5687.t1 | cds | g5687.t1.CDS1 | 11254688 | 11255057 |
| chr_2 | g5687 | g5687.t1 | exon | g5687.t1.exon2 | 11255119 | 11257043 |
| chr_2 | g5687 | g5687.t1 | cds | g5687.t1.CDS2 | 11255119 | 11257043 |
| chr_2 | g5687 | g5687.t1 | TTS | g5687.t1 | NA | NA |
Sequences
>g5687.t1 Gene=g5687 Length=2295
ATGTCGAAGAAAAGCAATAAGAAAGATCAACAAAAAAGTTTATGGTACATCTGCGATAAA
TGTGGAATAAAAATTATTCATAATCAATTAAGTTCTCACTCAGAAAATACATGCTCAATT
TTCGGCATTTGTGAAAATGTTTTTACAACTAAACATATTAACTGCAGTGTTTTACCACAA
GAAATAGATCTAAAAGATGCTCCAATCATCTATCTTGAACGTTTTATATTTATTCCTGAG
ACAATTTGCAAACACTGTGACTTAAAGATGAATGGCTATGTATTGATTGAAATTGATGAA
AAAAAGTATGTGAAAAAGTCTTGGACAATTAGTGATAATCATCTGGATATGATATACACA
AATTCTAATGAAATCAATGAAGAACAAAAAGAAGAAAGCATAGTGAGAATATCAAAATTT
AATTCATCGATTAAAATTGCAAGACAGATCGTATTGAAACATAACGAAAATGTTCAAGAA
ACAATAGACATAGAACGACTCATTAGAGGAAAACTTAAAAATACAGTAGTCCATACTTCA
AACATCATTGTCATAAATTTTCTTAATAAAAAATTTAAATTTTATATAGATACCATAAAA
GAGAAAGAAGAAGATGATATTGCAGATAAGTTATCAAAAATGAATTTAAATGAAAGTGGA
TTCTTTTTTATTCAATCTGACACAATAATCACAATTTCATCATTGTATAAAAGTGAGCAA
GCAGAAAGTAAACAGCAGAAAATTTATACACTTGATAGAGTTGGTGGTCTCGATGAAATT
ATTAATGATATTAAAACAATTATGGAAATAGCACTGAATCCTATCAATCAAATGTCATTA
TCGAAAATATCGAGAGGAGCTTTAATTTATGGATTGTCAGGATGTGGCAAGACTTTGCTT
TCAGAAGCAATATGTGAGAGTTTTGTTGCTCATAAGATTCATATTGAATCGTGGAAAATT
TTTAGTAAATTTTATGGAGAATCAGAGAATAATCTAAGAAAACTTTTTGATGAAGCAAAT
CAAATTTATCCAACACCTTGTATAATTTTAATTGATGAGCTGTCTAATATATGTCCAAAA
AACGACTCTTCTGATGTCGTGAAAAAAGTATCTTCTCTTTTAGTTTCACTTATAGATGGG
TTACATACAAAACGAAATGGAAGCAAAACATTTATAATAGCTACAACAAACAACTTGGAC
AATATTGATCCAGCAATACGTAGAAGTGGAAGATTAGATTATGAAATTGAAATTCCTGTT
CCAAATACCCAAATGCGAGAAGCTATTTTGAAGAAATTGTTGAAAAACTTTGAAATTTCT
TCTTTTGATATTCAAGCGATTGCAAAATTCACTCATGGATTTGTTGGCGCTGATCTTGAA
AACTTAATATCAAAATCAAAGAAAATTACGAATGGTTACGTTCATTTAACACAACAAGAT
ATCCTTTCTAATTTATCATCAGTTAAACCAAGCGCAATGCGAGAATTACTCGTTGAGAAA
CCAAATGTAAAATGGTCAGATATTGGTGGAATGAAAGATTTAAAATTAAAATTGAAGCAA
ATTGTTGAATGGCCATTGCAACATCCAGAAACATTTTCACGATTAGGAATTAAAGCGCCA
CGTGGACTTTTGATGTTTGGTCCTCCTGGTTGCTCTAAAACAATGATTGCAAAAGCTTTA
GCTAGTGAGAGCAATTTAAATTTTATTTCAATCAAAGGTTCAGATCTTTTTTCTATGTGG
GTTGGTGAATCCGAGAAAGCTGTAAGAGATCTCTTTATTAAAGCGCGTCAATTAGCTCCA
TGCATAATATTTTTTGATGAAATTGATGCAATCGGTGGCGAAAGAGAAAGTGGAAGTTCT
GTCAAGGAACGAGTGCTGGCACAAATATTGACTGAGCTTGATGGAATTAATGTGCTTAAA
GATGTAATTATTATTGCAGCAACAAATCGTCCTGATTTAATTGATTCGGCACTTATGCGG
CCGGGTCGTCTTGATAGAATTGTTTATGTTCAATTACCAGATGCTGACACAAGAGAAGAG
ATTTTTAACATAAAACTCAAAAATATACCTATAGCAAAAGATGTTGATATAAAAAAACTT
GTGGAAAAAACAAAAGGTTATTCCGGTGCTGAAATCGAAGCTGTTTGTAAAGAAGCTGCA
CTTAAGGCTCTAGAAGATTCATTTGATATAGATGAAATTACAATGAATTATTTTGATAAA
GCATTAACAATAGTGACACCTCGCACTAGTTCTGAACTTCTTGAACTTTATCGTGATTAT
GAAAGAAAAAAATAA
>g5687.t1 Gene=g5687 Length=764
MSKKSNKKDQQKSLWYICDKCGIKIIHNQLSSHSENTCSIFGICENVFTTKHINCSVLPQ
EIDLKDAPIIYLERFIFIPETICKHCDLKMNGYVLIEIDEKKYVKKSWTISDNHLDMIYT
NSNEINEEQKEESIVRISKFNSSIKIARQIVLKHNENVQETIDIERLIRGKLKNTVVHTS
NIIVINFLNKKFKFYIDTIKEKEEDDIADKLSKMNLNESGFFFIQSDTIITISSLYKSEQ
AESKQQKIYTLDRVGGLDEIINDIKTIMEIALNPINQMSLSKISRGALIYGLSGCGKTLL
SEAICESFVAHKIHIESWKIFSKFYGESENNLRKLFDEANQIYPTPCIILIDELSNICPK
NDSSDVVKKVSSLLVSLIDGLHTKRNGSKTFIIATTNNLDNIDPAIRRSGRLDYEIEIPV
PNTQMREAILKKLLKNFEISSFDIQAIAKFTHGFVGADLENLISKSKKITNGYVHLTQQD
ILSNLSSVKPSAMRELLVEKPNVKWSDIGGMKDLKLKLKQIVEWPLQHPETFSRLGIKAP
RGLLMFGPPGCSKTMIAKALASESNLNFISIKGSDLFSMWVGESEKAVRDLFIKARQLAP
CIIFFDEIDAIGGERESGSSVKERVLAQILTELDGINVLKDVIIIAATNRPDLIDSALMR
PGRLDRIVYVQLPDADTREEIFNIKLKNIPIAKDVDIKKLVEKTKGYSGAEIEAVCKEAA
LKALEDSFDIDEITMNYFDKALTIVTPRTSSELLELYRDYERKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g5687.t1 | CDD | cd00009 | AAA | 268 | 419 | 1.46912E-11 |
| 16 | g5687.t1 | CDD | cd00009 | AAA | 509 | 672 | 8.00019E-25 |
| 12 | g5687.t1 | Gene3D | G3DSA:3.40.50.300 | - | 242 | 420 | 7.0E-39 |
| 15 | g5687.t1 | Gene3D | G3DSA:1.10.8.60 | - | 421 | 503 | 9.4E-11 |
| 13 | g5687.t1 | Gene3D | G3DSA:3.40.50.300 | - | 504 | 759 | 1.5E-100 |
| 14 | g5687.t1 | Gene3D | G3DSA:1.10.8.60 | - | 673 | 745 | 1.5E-100 |
| 4 | g5687.t1 | PANTHER | PTHR23077:SF27 | ATPASE FAMILY PROTEIN 2 HOMOLOG | 118 | 761 | 4.8E-185 |
| 5 | g5687.t1 | PANTHER | PTHR23077 | AAA-FAMILY ATPASE | 118 | 761 | 4.8E-185 |
| 1 | g5687.t1 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 288 | 419 | 2.1E-29 |
| 2 | g5687.t1 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 543 | 671 | 1.1E-42 |
| 3 | g5687.t1 | Pfam | PF17862 | AAA+ lid domain | 694 | 739 | 9.2E-16 |
| 11 | g5687.t1 | ProSitePatterns | PS00674 | AAA-protein family signature. | 390 | 408 | - |
| 10 | g5687.t1 | ProSitePatterns | PS00674 | AAA-protein family signature. | 642 | 660 | - |
| 8 | g5687.t1 | SMART | SM00382 | AAA_5 | 283 | 422 | 2.6E-11 |
| 9 | g5687.t1 | SMART | SM00382 | AAA_5 | 539 | 674 | 2.3E-19 |
| 7 | g5687.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 250 | 494 | 1.18E-39 |
| 6 | g5687.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 501 | 759 | 4.73E-67 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5687/g5687.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5687.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K14575 (AAA family ATPase)
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.
