General information for g8961.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as AT-rich interactive domain-containing protein 2.
Parent gene
- The parent gene g8961 is located on chr_2: 34214913..34220760 (- 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 | g8961 | g8961.t1 | TTS | g8961.t1 | 34214836 | 34214836 |
| chr_2 | g8961 | g8961.t1 | isoform | g8961.t1 | 34214913 | 34220760 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon1 | 34214913 | 34215036 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS1 | 34214913 | 34215036 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon2 | 34215096 | 34215193 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS2 | 34215096 | 34215193 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon3 | 34215252 | 34215458 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS3 | 34215252 | 34215458 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon4 | 34215515 | 34215641 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS4 | 34215515 | 34215641 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon5 | 34215698 | 34216889 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS5 | 34215698 | 34216889 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon6 | 34216963 | 34217298 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS6 | 34216963 | 34217298 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon7 | 34217360 | 34217894 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS7 | 34217360 | 34217894 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon8 | 34218228 | 34218467 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS8 | 34218228 | 34218467 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon9 | 34218525 | 34220562 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS9 | 34218525 | 34220562 |
| chr_2 | g8961 | g8961.t1 | exon | g8961.t1.exon10 | 34220630 | 34220760 |
| chr_2 | g8961 | g8961.t1 | cds | g8961.t1.CDS10 | 34220630 | 34220760 |
| chr_2 | g8961 | g8961.t1 | TSS | g8961.t1 | 34220884 | 34220884 |
Sequences
>g8961.t1 Gene=g8961 Length=5028
ATGTCATTCGAGTCACCGGTTGTGAAAGAAGAGGAGTTTCGAACAAAGCAATCAAGAAAA
AACAAAAACAGCATTTTGTTGAGTCGAGAAGATTTTTTCAAAGATTTACTTAAATTTCAT
GAATCTAGAGGAACACCAATCGTTAAATTCCCAAAAATATCAGGAAATGGCCATTTATCC
AACATTGATTTATACAAGCTTTATGATTTAGTTATTGGCAAAGGAGGATGGATGAAAGTG
AACTCAAAGAATGAATGGAGTGATGTTGAAAAAGAAATTGGATTTCCAGAAAAATGTGTA
AATTCTGAATTGGCATTGAAGCACATTTACATCAGATATTTTGACAAATATGAAAGAGTT
AATTTTTTGGGTGAAGAAAAGGAAAGAATTGATGAAGATGAAGAAGAAAATCGTCATAAA
AAATGGACATCAAGAGCATTACATGCAATTCCACAATCTTACAATCATAATCATCATATA
AACTTTTCAGACTCAATGAGGCAAACATTGAAATTATCAACGAATCTTTTTCAAGCATCT
GAATATGACAAATTGTCAATGTCATTACTTTCACCGCTTCCAAATGAACAAGATTTTGCA
ATTAATGTTCTAACACTAATGAGTAATGAATGCAAACAGACATTAAGGCTTTATAAATGT
CCAAGACTTTTAGGCAACTTACTAGCTCATGCTGGATGTTATGAACATAGCAATTTAAGG
GAAATGTTTCATGAATTTTATTCTTCAGTTCGAGGACATTCACAAGAAAATTTTTGGAAA
GATTTATTGAGTGAAAAACCAGATTTATTTTATCTCATTTATGAGGATGTTTTGAATGAA
GAAGAATCTTCAGAATCAGCAGAAGGAGTGAAGAAGTTATTTGGAACACATGATGCACCA
TTGACTGAAATTCAAGATTTTAAATTTTTAGCACTTGGTAGAGGCTTAGGAACACAAGAC
TATATCGGACAAAGAATTCATCAAATTGCAACAATCATTCGAAATTTGAGCTTTTTTGAG
GAAAATTCTTCAATTTTAGCTCAAGATAAAACTCTTTTAAGATTTCTAATAATGAGTGCA
AATGCACGTTGGAATAATTTACATATGATGGCATTAGATGTAATTGGAAATATTGCAGCT
GATATTGAATTAAAAGATCCTTTTACTGATTTAATTTCACGACATTTATTTGGTTTAATT
TGTGATGAAATCGAAAGCAATGATCGAGGTACAATCATAAGTGCGATGGAAATTTTAAGT
AAATTATGCACACGTGAAGAAAATGAAGATTTTCTGCTTAAAAATTTAAAAAAAGAAAAT
TATGAGCAAATTTGTCTTTATTTGCTTGTACCTGATATGATGCTTCTTATTTATACACTC
GAATGTGTTTATTCTTTAAGTACTCTTGGTGAAAAAGCTTGTAATTCAATTGTGGATATT
CATGGAATAATTGATACACTTGTGTCGATGATTACAATTGAAGCACAATCACTTGGTTCA
GAATCATGCATTCAAATGAAAGTTGTTGAGACAGTTCCAACACGTCAATTATTTCATACT
CCAGCTAGACATGTGATGCCACAAAATGTCATGATTCAAAAAGGAAATATTCCTGATCAA
CAACGAGCTATGTATCAATCACCAACAAAATTCATTCAAACACCACAACAGCAGCAATCA
CAACAGCATTCTTCAAATGAAAATGAACAATCACAAAAAGCTGACATGTTGTTAAAACAA
AAGCAGCAACAGGCGATGCAAGAAAATGAACAATTCGCTTTGGTGTGGATTAAAAATAAT
TTTGAACTTTCGCCAAGTCTCATGGTGAAAATAGAAGAACATGACATGTACCGCATGTAT
CTCAATGCGTGTGCAAAAATTGGTCGAAAAGGAGTAATTTCGCAAGTTCATTTTCCACGC
TGTGTTCGATCAATTTTCGGTGGTTCTGTTGGTCCTAATCCGAGTACAGTCGATCCATCA
TCAGGTGAAAAACCAATCAATTATTATTGTGGAATTAAACCACGTGCAATGAATTTACCA
ACTCCAAGTAATGATCAAAAGCCAGAAACAATAATTATTCATCCAACAAGTGTGAAACAA
GAAAATAAAACAGAAGATTCTGCTCTAGTAACGCAACTGAGTGGAAAACAAGCTGGTTCT
AATGCGACAGGGCAATCACTTTTGCAGCAAGCATTATCAACAAGTCAAGCAGTTCCATCA
ATTCAAAGTCCTACAACAACAACGAGTGCACCATTGACATCAGCAGCAGGCACATCGACA
TCGTTAATAAAAAGTTTATTAGCAAATAAGGTAACAGCTAGTAATGAAACTATAATTACT
ACTACTACCACAACAATGAGCATGCCCTCATCAAGTGTGAATCCAACAAATGTCAATAGC
TTGCATCAGGTTGCACAACGACAGCAAATAACACAGAAAAAATTAACTGAACAGCTTAAT
GCTCCTTCAGTTCCACCACCAGTTTCGTCACAACAACCACCAAAAATGGTTGTCACAAGT
GCTCCAAATATTATGAAAATTGGAGCATCGACAATTTCAATTAAACAAGGAATTCCACCT
AATACGGTCATTACAACAACAAATCCTAATGATAATAAACCTGTAGTTGTCACAACAAAT
GATCCACCACCATTAGCTCCATTGAGCACTCAAAATAAAACTCCTGCAATTGTTCAAACA
ATTTCAATTAATCCAAATTCTCAAGAAAAAGTTTTGGTATCACCAGTTTCTCAAAAATTG
ACAGCTAATAAAATGCTTGTCGATCTTTTGGATAAAAAAGCACCTGAACCGCCAGTTTTT
ACTGGAACTTCAATTAAAAGAAAAGCAGAAATTGAACCAGAAGTTCCTGCTAAGAAAGTT
GAAATTGAAACTCAACGACCTGAACAAATTGTTTCACCATCACCTAAAGCTGCTGATTTA
TATGCAAAATTAGCAGGCTCAATTTTAGAGGATGAAGAAATGGAAGAAGATGAAATTGAA
AAAGCAGTGCCAGCAAAAATTATTGAAAAGAAAATAATCGAAGTGAAACCAACATCATCT
GGCAATCAAATAATAAACACAGCACAAGTTCAACGTCAAATAATCGTGGGTCCAAATAAT
CAAGTAATTTTATCACCAAATGCGACTCATCAGACTACAGCTACAATTAAAACAGATTCT
GGCATTCAGACCGTTCCAATCATTCTTCAAAATAATGCCATTCAAAGCATTCAAACACCT
ACAATCATTCAGCAACCGCAACCAACCCAGTATATTTTAGCAACGAATCAGCAAGGACAA
ACATATGTGGTTGCACAACAAACCCCACAAATACCACAAACGGTTTTACTCGCTCAAACT
CCTGGCCAACAAGGTGCACAAACGAAAACTATTATAATTTTACAACAACCACAAGGTCAA
CATGGACATGGACAAATTCAAGTACAACCCCATCAAAGTCAAAAAATTATTATGACACCA
AGTGGTCAACCAGTGATTTATTCATCACCAGTACAGAGACAAGCAATTGGACAGCAAGTA
ATTCAAACCGTAAGTCAACCGTCAATTATTCAAAGTTCATCAGCGCAATCTACTTCTCGT
AAAATTGTTATTACAACAAATGCACCAAGCGATCAAACTAAAATCATTCATAATGTGCAG
CAACAAACTTCTAATAAAATTGTTCAACATTCATCACCACAACAAACACTGCAGGCAATT
GCACAAGGTCAAAACATTATTGTACAAAAAGGGCAAAAGTTTCAAATTGGAAGCACGCAA
ATTTCACAAGTAATTACTCCTGCTCCGAGTTCTCAACAAATTTTGCAGCAAACAGTCGTT
CAACAAGTTGTTCCACAACAGCAGCAACAAATCACGAAAGTTATTCAAAAAGTAGAAAGT
CCATCAACTGTCATTACTTCCACTGTTCAACCCATTCAAACAACTTCTAATACTAATGTA
GTTATAAAAGAAAATCCACCAATTGTTGAACAAAAGAAAGTTGAAAGTCCTATCGTTGAA
ACTTCACCACCAATGATTCCAACAACTGTCAATCAAGAGCAGCCAACAAAAAGTGAAAAT
AATGAAAACAGTAATGAATCGACTTCAGCAACAAATATTAATAATCAAGGAACGAAAACA
GAAGAAGTAGAAGCAGCAAAAGAAAAAGAGAAAACACCAACTTCTTCAGGATCTTCTTCT
CCAAATGCAAATGGACAAAATAAACAGACAATTTCAATTCAAATTCCAGTTCCACAATCA
CAACTTGCTGGTGCAAATGCACAACAGTATACGATCAAAATTATTCCTTCAATGGATCCA
TCTGTGAAAGTTAAAGATGAAGACGTTGATCCAAGTTGGTTATACATTTGTGAATGGCGT
GGATGTCCGAAAAAGAAATTTAATTCAGCAAATGAAGTTTATTTGCATGCATGTGCTATA
CATTGTCCATCATTAGAAGGAAATCCTGATTTATTCTGTCAATGGGGCGGTGGAAATACA
TTATGTGACAATTTACCAAGAAAAAGATTTTCTTTAATGACTCACATTCTTGATCGTCAT
TGTACTGGAGATGCATTCAAAATTTCAACTCAAAAAAGACTTGCAGCAATTGAAAGTGGA
CAAGCATCACAAACACAAAAACAACCATATCCTGTCACACTTTATCGTCAACCAAATGCA
CAAGTTAATGATAGTCAAAATCCTAATTTAGCGAATGGTCCCACCAATATTCAAAATGCT
GGAGTTGCTGCAATGCAAGCAATTAAAAGGCACTCAATTGATTTCATTCATTTGAAAGAT
GTGAATTTACAAGATGAGCCTGAAGGTACTGTGACAAAAAGCATTAGATTAACAGCAGCA
TTAATTATCAGAAATTTAGCATCATATAGTAACGCAGCTAAGAGAGCATTACGTTATCAT
GAATCTCACTTATCGCAAATTGCTTTAAGTAATTTGGAGTCAAATCGTGTTATTGCACAA
GTCCTTTATGAAATGAACGAGCAAATTTCTCCTTTCACTAGACCATAG
>g8961.t1 Gene=g8961 Length=1675
MSFESPVVKEEEFRTKQSRKNKNSILLSREDFFKDLLKFHESRGTPIVKFPKISGNGHLS
NIDLYKLYDLVIGKGGWMKVNSKNEWSDVEKEIGFPEKCVNSELALKHIYIRYFDKYERV
NFLGEEKERIDEDEEENRHKKWTSRALHAIPQSYNHNHHINFSDSMRQTLKLSTNLFQAS
EYDKLSMSLLSPLPNEQDFAINVLTLMSNECKQTLRLYKCPRLLGNLLAHAGCYEHSNLR
EMFHEFYSSVRGHSQENFWKDLLSEKPDLFYLIYEDVLNEEESSESAEGVKKLFGTHDAP
LTEIQDFKFLALGRGLGTQDYIGQRIHQIATIIRNLSFFEENSSILAQDKTLLRFLIMSA
NARWNNLHMMALDVIGNIAADIELKDPFTDLISRHLFGLICDEIESNDRGTIISAMEILS
KLCTREENEDFLLKNLKKENYEQICLYLLVPDMMLLIYTLECVYSLSTLGEKACNSIVDI
HGIIDTLVSMITIEAQSLGSESCIQMKVVETVPTRQLFHTPARHVMPQNVMIQKGNIPDQ
QRAMYQSPTKFIQTPQQQQSQQHSSNENEQSQKADMLLKQKQQQAMQENEQFALVWIKNN
FELSPSLMVKIEEHDMYRMYLNACAKIGRKGVISQVHFPRCVRSIFGGSVGPNPSTVDPS
SGEKPINYYCGIKPRAMNLPTPSNDQKPETIIIHPTSVKQENKTEDSALVTQLSGKQAGS
NATGQSLLQQALSTSQAVPSIQSPTTTTSAPLTSAAGTSTSLIKSLLANKVTASNETIIT
TTTTTMSMPSSSVNPTNVNSLHQVAQRQQITQKKLTEQLNAPSVPPPVSSQQPPKMVVTS
APNIMKIGASTISIKQGIPPNTVITTTNPNDNKPVVVTTNDPPPLAPLSTQNKTPAIVQT
ISINPNSQEKVLVSPVSQKLTANKMLVDLLDKKAPEPPVFTGTSIKRKAEIEPEVPAKKV
EIETQRPEQIVSPSPKAADLYAKLAGSILEDEEMEEDEIEKAVPAKIIEKKIIEVKPTSS
GNQIINTAQVQRQIIVGPNNQVILSPNATHQTTATIKTDSGIQTVPIILQNNAIQSIQTP
TIIQQPQPTQYILATNQQGQTYVVAQQTPQIPQTVLLAQTPGQQGAQTKTIIILQQPQGQ
HGHGQIQVQPHQSQKIIMTPSGQPVIYSSPVQRQAIGQQVIQTVSQPSIIQSSSAQSTSR
KIVITTNAPSDQTKIIHNVQQQTSNKIVQHSSPQQTLQAIAQGQNIIVQKGQKFQIGSTQ
ISQVITPAPSSQQILQQTVVQQVVPQQQQQITKVIQKVESPSTVITSTVQPIQTTSNTNV
VIKENPPIVEQKKVESPIVETSPPMIPTTVNQEQPTKSENNENSNESTSATNINNQGTKT
EEVEAAKEKEKTPTSSGSSSPNANGQNKQTISIQIPVPQSQLAGANAQQYTIKIIPSMDP
SVKVKDEDVDPSWLYICEWRGCPKKKFNSANEVYLHACAIHCPSLEGNPDLFCQWGGGNT
LCDNLPRKRFSLMTHILDRHCTGDAFKISTQKRLAAIESGQASQTQKQPYPVTLYRQPNA
QVNDSQNPNLANGPTNIQNAGVAAMQAIKRHSIDFIHLKDVNLQDEPEGTVTKSIRLTAA
LIIRNLASYSNAAKRALRYHESHLSQIALSNLESNRVIAQVLYEMNEQISPFTRP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g8961.t1 | Gene3D | G3DSA:1.10.150.60 | - | 6 | 142 | 1.9E-27 |
| 12 | g8961.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 550 | 582 | - |
| 10 | g8961.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 697 | 716 | - |
| 13 | g8961.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1332 | 1407 | - |
| 11 | g8961.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1342 | 1380 | - |
| 9 | g8961.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1392 | 1407 | - |
| 3 | g8961.t1 | PANTHER | PTHR22970 | AT-RICH INTERACTIVE DOMAIN-CONTAINING PROTEIN 2 | 28 | 1006 | 5.0E-284 |
| 4 | g8961.t1 | PANTHER | PTHR22970 | AT-RICH INTERACTIVE DOMAIN-CONTAINING PROTEIN 2 | 1325 | 1668 | 5.0E-284 |
| 2 | g8961.t1 | Pfam | PF01388 | ARID/BRIGHT DNA binding domain | 29 | 118 | 1.8E-18 |
| 1 | g8961.t1 | Pfam | PF02257 | RFX DNA-binding domain | 591 | 647 | 4.4E-7 |
| 16 | g8961.t1 | ProSiteProfiles | PS51011 | ARID domain profile. | 26 | 122 | 23.428 |
| 15 | g8961.t1 | ProSiteProfiles | PS51526 | RFX-type winged-helix DNA-binding domain profile. | 593 | 676 | 13.083 |
| 8 | g8961.t1 | SMART | SM01014 | ARID_2 | 23 | 118 | 4.2E-23 |
| 7 | g8961.t1 | SMART | SM00501 | bright_3 | 27 | 123 | 1.2E-19 |
| 6 | g8961.t1 | SUPERFAMILY | SSF46774 | ARID-like | 12 | 130 | 1.96E-25 |
| 5 | g8961.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 326 | 492 | 7.68E-9 |
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:0003677 | DNA binding | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K11765 (AT-rich interactive domain-containing protein 2)
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.
