General information for g11450.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase 2A regulatory subunit B’’ subunit alpha.
Parent gene
- The parent gene g11450 is located on chr_1: 16333819..16335142 (+ 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_1 | g11450 | g11450.t1 | isoform | g11450.t1 | 16330525 | 16335142 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon1 | 16330525 | 16331101 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS1 | 16330525 | 16331101 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon2 | 16331321 | 16331997 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS2 | 16331321 | 16331997 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon3 | 16332069 | 16332154 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS3 | 16332069 | 16332154 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon4 | 16332209 | 16332442 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS4 | 16332209 | 16332442 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon5 | 16332500 | 16332927 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS5 | 16332500 | 16332927 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon6 | 16332989 | 16333299 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS6 | 16332989 | 16333299 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon7 | 16333362 | 16333520 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS7 | 16333362 | 16333520 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon8 | 16333596 | 16333669 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS8 | 16333596 | 16333669 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon9 | 16333819 | 16333890 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS9 | 16333819 | 16333890 |
| chr_1 | g11450 | g11450.t1 | exon | g11450.t1.exon10 | 16334905 | 16335142 |
| chr_1 | g11450 | g11450.t1 | cds | g11450.t1.CDS10 | 16334905 | 16335142 |
| chr_1 | g11450 | g11450.t1 | TSS | g11450.t1 | NA | NA |
| chr_1 | g11450 | g11450.t1 | TTS | g11450.t1 | NA | NA |
Sequences
>g11450.t1 Gene=g11450 Length=2856
ATGACAACCACAACTAAAAAGAATTCACCCTCATCGTCTACAACTGATGTGAGAAGGAGT
TCATCTTCATCTTCATTAGAAACGGCCGAGGATATTGAATATATTGCAAAACAAATATCT
GATCATGCTGAGGCCATTTATCAAGAATGGAAAGCAAGAGGTCTCGCACCATCTGAAATT
TTGAAATGTCATCCCGAAGCAGACAAAAAGTTTAATTCAACATTAAGTCCATTAGTGTCT
CCATCTAAACCTGTCCTAAATTTTGCTCCTTCTGAGCTATTGGTCAACGACGCAAATCTC
TCAAATAGTAATTTAAAGCAATTAGTTAACACATTTGTGAATGAGGATAAAGCCCGAATA
GCTGCAACCGGTGGAAAATATACTGCCTCTAATAAGAGATTAGATAATTCTCTAGTGCAG
CAATCACCTGAGAATAATAGTAACAAAGGCATCAGCAACAGTAACAATAAATTTGTAATC
GACGAATCATTGCAAAATTATCAAGTGCCAGATGTTCTTAGAGACACTATTGAGAAATGT
TCTAAACTAGAAAAGCCTAAGCCACAACCTAAACCAGATCACCTTTTGAATTGGCCATTT
AAATACCGTAATATAATAAATAATAATAATAATAGCAATTCAGCAAGTACGAAAACACAT
AGCGAAGATAAATCAGCGACTTCACCTTTATCTTTTCCGTCTACGTCTGATTATGCCGAT
AATACAGGTAGAAAATCCAATATAATGGTCGAAGTTTCACGCGAGGAAGAAAAATTAATT
AATGCACTAAAAACTGGAACTGTATTGAACAATGATAATAACGTTGTCCTTCCCGAAGTT
ATTATGTCTTCATTAAATGATTATAAAGTTCAAGCTGAACAGCAACTCAATGGAATTGCT
TCAGTAATTAAAGAGAATAATAAGAAAATGGAAATACATGATTCAATCGATTCATCGTTA
CAAAATCAACCACAACTACCGCAAAAACCTAATCATACACCGATATTTGTTCCTCAAATG
AAAGATGAGGTGACAAAGAGTGTTTCAAATTTCACACGTGTTGCCACTACACGAATACCT
TCTCATCGGCATGATTTATCTAAATTTGATGAGAAAAAATTTGAATTGAAGAGCATCCCT
AGTCCTGTGAGACCTTTTCTATCACGTGGTTCTGTGGCTGAACGTGTGCTAATTTTTGAA
AAATGTCCCGAAAAGACTCCTATTAGACAAACTACAGAAAAACCGAAAATTCAGGCAAAA
CCTGTAAATAAAAATTTTCCCCCACTTCACTCAACATTGCAACGACATTTAAGAAGATCT
ACCAATTTTACAATTCCACAATTTCATTTTCCCAATGGTAAGCCGCCACCTTCAATAGCA
ATAGAGACAACTGTTCAACGACTAGAGCTGGTCTTTGATCAGTTTGAAAATTATGAAATA
CCTCGTGATAAATTTCATATTGTTGTTACCGTATGTCAAGTACCACTTTACTGGAGAGTG
CCATTGTTTATGTGTACACAACTGACGCAAACAGGTTGTGTTAATGGAAACAAATTTCTC
GATTTTTGGCGACAAATGACCAGCACATGTCATGATGCAGCTTCTCGTTTTATCTATATC
ATATCACGCGGAAATAAGTCACGTCCATATATCTTACCAGAAGATTTGGCACCGCTAATT
CAAGATGTCGTTGATTCACATCCTGGTTTAGCATTTTTAAAGGAGGCAGCTGAATTTCAC
TCTCGATATGTTCATACCGTGATCGCAAGAATTTTTTATACAGTAAATAGAAGTTGGTCG
GGAAAAATAACAGCATGCGAATTGAGAAGATCAAATTTTCTTGATGTCATTCAGCTTCTA
GAGGAAGAAGAAGACATTAATCAAATTATGGCATATTTTAGTTATGAACATTTTTACGTA
ATTTATTGTAAATTTTGGGAATTGGATAGAGATCATGATTTATACATTGATCAACAGGAC
TTAGCTAGACACAACGATCATGCACTTTCGTCTAGAATTATTGAAAGAATTTTCTCTGGT
TGTGTGACACGAGGACGAAACAAAAATAGCAAAAGTGGAGAAAACGGGATGAATGCAATA
ACTCGAATGTCTTATACTGATTTTGTTTGGTTCTTGCTGGCTGAAGAAGATAAACTTCAA
CCAACTGCTATCGAATATTGGTTTCGTTGTATGGATATTGATGGTGATGGGATTTTATCA
ATGTACGAATTAGAATATTTTTATGAAGAACAACAGCATAGAATGGAACAACTTGGAATT
GAGACTTTACCCTTTGAAGATTGCTTATGTCAAATGCTTGATATGATCAAACCCATTCGG
AAAAATTGTATTACTCTAAGTGATTTAAAACGATGCAAAATGACTCCTATATTTTTTGAT
ACATTTTTCAATCTCGAGAAATATATGGAGCATGAGCAACGTGATCCATTTGCACAAAAG
GAAAACGATGAGCTGACTGATTGGGATCGATATGCTGCGACAGAATACGAATTATTAGTC
GCAGAAGAAAGCAATGACGGAAATGGATTCGAAGATGCAACTGATGACTATGAAACAAAT
GTTGATTTTCTTGAAAATGAATGCTCTAACAATGAGTGTAGAAGAAGAAAATCTTATTAT
AGTCGTCGAATTCAAAGAATCAAGAGGCAAATGGAAAGAGAAAAGGAACTTGAGGAAATT
AGAAAACAGCAACAAGAAGAAGAACAATTAATCTTTAATGACGAAGAAGAAGATGATATT
GATGACGATATTGATGAAATAGAAATGGATGAAGACGATTATGATGAAAACGATTTTTAT
GATGATCAAGATGTAAATGATGCATCGTTAAATTGA
>g11450.t1 Gene=g11450 Length=951
MTTTTKKNSPSSSTTDVRRSSSSSSLETAEDIEYIAKQISDHAEAIYQEWKARGLAPSEI
LKCHPEADKKFNSTLSPLVSPSKPVLNFAPSELLVNDANLSNSNLKQLVNTFVNEDKARI
AATGGKYTASNKRLDNSLVQQSPENNSNKGISNSNNKFVIDESLQNYQVPDVLRDTIEKC
SKLEKPKPQPKPDHLLNWPFKYRNIINNNNNSNSASTKTHSEDKSATSPLSFPSTSDYAD
NTGRKSNIMVEVSREEEKLINALKTGTVLNNDNNVVLPEVIMSSLNDYKVQAEQQLNGIA
SVIKENNKKMEIHDSIDSSLQNQPQLPQKPNHTPIFVPQMKDEVTKSVSNFTRVATTRIP
SHRHDLSKFDEKKFELKSIPSPVRPFLSRGSVAERVLIFEKCPEKTPIRQTTEKPKIQAK
PVNKNFPPLHSTLQRHLRRSTNFTIPQFHFPNGKPPPSIAIETTVQRLELVFDQFENYEI
PRDKFHIVVTVCQVPLYWRVPLFMCTQLTQTGCVNGNKFLDFWRQMTSTCHDAASRFIYI
ISRGNKSRPYILPEDLAPLIQDVVDSHPGLAFLKEAAEFHSRYVHTVIARIFYTVNRSWS
GKITACELRRSNFLDVIQLLEEEEDINQIMAYFSYEHFYVIYCKFWELDRDHDLYIDQQD
LARHNDHALSSRIIERIFSGCVTRGRNKNSKSGENGMNAITRMSYTDFVWFLLAEEDKLQ
PTAIEYWFRCMDIDGDGILSMYELEYFYEEQQHRMEQLGIETLPFEDCLCQMLDMIKPIR
KNCITLSDLKRCKMTPIFFDTFFNLEKYMEHEQRDPFAQKENDELTDWDRYAATEYELLV
AEESNDGNGFEDATDDYETNVDFLENECSNNECRRRKSYYSRRIQRIKRQMEREKELEEI
RKQQQEEEQLIFNDEEEDDIDDDIDEIEMDEDDYDENDFYDDQDVNDASLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g11450.t1 | Coils | Coil | Coil | 887 | 917 | - |
| 7 | g11450.t1 | Gene3D | G3DSA:1.10.238.230 | - | 440 | 541 | 2.1E-32 |
| 8 | g11450.t1 | Gene3D | G3DSA:1.10.238.220 | - | 545 | 632 | 1.5E-37 |
| 6 | g11450.t1 | Gene3D | G3DSA:1.10.238.10 | - | 633 | 814 | 6.2E-71 |
| 12 | g11450.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - |
| 13 | g11450.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 154 | - |
| 11 | g11450.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 213 | 239 | - |
| 15 | g11450.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 898 | 951 | - |
| 14 | g11450.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 910 | 943 | - |
| 3 | g11450.t1 | PANTHER | PTHR14095 | PHOSPHATASE 2A REGULATORY SUBUNIT-RELATED | 150 | 857 | 5.7E-195 |
| 2 | g11450.t1 | Pfam | PF17958 | EF-hand domain | 532 | 623 | 1.6E-34 |
| 1 | g11450.t1 | Pfam | PF13499 | EF-hand domain pair | 638 | 749 | 1.0E-19 |
| 10 | g11450.t1 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 732 | 744 | - |
| 17 | g11450.t1 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 647 | 671 | 5.085 |
| 16 | g11450.t1 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 719 | 754 | 9.799 |
| 4 | g11450.t1 | SUPERFAMILY | SSF47473 | EF-hand | 470 | 610 | 8.35E-10 |
| 5 | g11450.t1 | SUPERFAMILY | SSF47473 | EF-hand | 622 | 796 | 1.34E-21 |
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:0005509 | calcium ion binding | MF |
KEGG
Orthology
- This transcript has been annotated with K11583 (serine/threonine-protein phosphatase 2A regulatory subunit B’’)
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.
