General information for g10969.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase rdgC.
Parent gene
- The parent gene g10969 is located on chr_1: 13065398..13073429 (+ 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 | g10969 | g10969.t1 | isoform | g10969.t1 | 13065398 | 13073429 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon1 | 13065398 | 13065620 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS1 | 13065398 | 13065620 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon2 | 13070380 | 13070918 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS2 | 13070380 | 13070918 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon3 | 13071103 | 13071142 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS3 | 13071103 | 13071142 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon4 | 13071246 | 13071559 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS4 | 13071246 | 13071559 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon5 | 13071642 | 13071710 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS5 | 13071642 | 13071710 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon6 | 13071766 | 13071957 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS6 | 13071766 | 13071957 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon7 | 13072022 | 13072274 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS7 | 13072022 | 13072274 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon8 | 13072365 | 13072522 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS8 | 13072365 | 13072522 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon9 | 13072672 | 13072819 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS9 | 13072672 | 13072819 |
| chr_1 | g10969 | g10969.t1 | exon | g10969.t1.exon10 | 13072969 | 13073429 |
| chr_1 | g10969 | g10969.t1 | cds | g10969.t1.CDS10 | 13072969 | 13073429 |
| chr_1 | g10969 | g10969.t1 | TSS | g10969.t1 | NA | NA |
| chr_1 | g10969 | g10969.t1 | TTS | g10969.t1 | NA | NA |
Sequences
>g10969.t1 Gene=g10969 Length=2397
ATGTTACGAAGTTGTATATGCATTAAAAAAGAGCGACGTGATTCGCAAAATTCATCAACT
TCATCATGTCGATCGTCGGAAATTGAACGAAATGCGGCAGCTATAAGCAATCTGGATGAT
GATAGAGACAATAGGAGCTTTATGAAGTTCCTAAGCTCTACACTATGCTTTCGTATTGTA
CGAACACCACGTCGTGGAATGTCAATGACAAAAGTTGAAAGAGTCATTAAGGCAACACTA
TTGATTCAGAGATGGTATCGTCGATACATGGCACGCATCGAAATGAAGCGACGTTACACG
TGGACAATATTTCAGAATATCGAATATTCAGCAGAACAGGATCAAGTGCGACTCTATAAT
TTTTTCAATGATTTACTTATGCACATGCCAGAAGCTGCAAAGCAAGTTAAAGATTTAGAT
GAAGTATCAACATCGTCAGCAGAGGAGTCACTTGATGATGATTTTGTAGATGAGACGGAT
GATTCTGATGATGCCATGGACGATCAAAAAACTTATCGTGGACCACATCTAAATCTTCCT
CTAGAGAAACAAGATCTTGATATGCTTATAAATTTATTTCGAAAGAGAAAATACTCTCTG
CATGCAAAATATGTCGCATTGATTTTACGTGAGGCTGCAAAGAAACTTCGACGATTAGAT
AACATCAATAGAGCATCAACTGAAATTAAAGGATCGAAAACGGTGACTGTTGTTGGTGAT
TTGCATGGAAAACTTGATGATCTCTTGGTTATTTTGTATAAGAATGGCCTCCCTTCGCAC
ACCAACTGTTATGTGTTCAATGGTGATTTTGTTGACCGTGGCAAGAAAAGCTTAGAAGTG
CTCTTGATTTTATTATCGTGTTTCATCATCTTTCCCGGCTGCGTTATGCTCAATCGTGGT
AATCACGAGGACTCAGTTATGAATCATCGTTATGGTTTTACGCGTGAAGTCCATCAGAAA
TATCGACACAATGCAGATCGTTTGTTGAAACTAATCGACCAAGTTTATCGCCATTTGCCG
CTCGGAACGCTCATTAACAATAAAATTTTTGTAGTTCATGGAGGAATTTCCGAAAATACG
GATTTGAATCTGATAGCTAGCGTGAGAAGAAGTAAATATATTTCAATACTCCGTCCACCA
ACACAGCCAAACGATGATGCAAGTGATTTCAAAACAGAATGGAAACAAGTGATTGATATT
TTATGGTCTGATCCAATTATGAATGATCCCATCTGTCCAACTCCAAACAAGCGCGGGGCG
GGTGAATGTTTTGGACCTGAAACTACTAACAAATTTCTTCAGCGACACAATCTGACAACT
CTCGTGAGATCACATGAATGCAAGTCTGACGGTTATGAGATTGTACACAATGGAAATGTG
ATAACAGTTTTTTCTGCTTCAAATTATTATGAGATTGGGAGTAACAAGGGCGCTTATATA
AAATTTGGTGCTAATTCCGATCGTTATTTTGTACAATTTACTGCGGCTGCATCAAAAACT
AAAAAGTTAACATTCAGACAGCAAGTGGATAATGTTGAGAAATCGGCCATTCGTGAACTA
AAGGAGAAGCTTAGAGAGCAAAAGTTGAATTTGCAGAAACAATTCAAAATGCGCGACGTA
GAGAATACAGGACATTTGTCGTTGAGTCAATGGTCAGAGGCGATGGAATCGGTAACTAAT
TATAAGCTGCCATGGCGTCTCTTACGTGAAAAGCTCGCAGTTATGAACGAGAACAACGAA
ATTTTATACGAAAACACGCTACAATTGATTGAAATTGACGACGATATAAAAATTGGTGCC
AACGATTCAAACAAAATAACTGACACGATGTATACAAATCGTGAAAACTTAGAAGCTATT
TTTAGAATGATGGACTTGGATTCAAATGGTTTGATTAGCATAGACGAGTTTAAACAAGCA
TGTGAAATGCTATCAGCTTACCTTCCAAATTATGATGTCGATCAAATGTTGGAAAATTGT
CGCATGATGGATATAAACAAAGATTCGCTTGTCGATTTAAATGAGTTTCTAGAAGCATTT
AGACTCTCGCAACAGTCAGCAAACCACACGTCTGTGATTAGAAATAGTAAATTAATAGAG
ACAACCGTGAAGGTCGATGAGAATTCGATAGAGAATGCCAAAAATAATTCTGCAGATAAT
GCACATGATGAGAATATCAAGGGAGGCGATGCTCAAGTCGATGAGTATGAAATTAGTGAA
ATGAAAGAAGTCACAAGCGGTGGACGAATGAGAAAATCTCCATCAATTCGATCAGTTGTC
TCTGTAGAATCGCTAGGTCAAACTGTTGGGAATAATAATGAGACAAAGAATGACAAACTG
CAGAATGATGACGGAGTTGCGATTGAAGATATAATTAGTAAGGTGGATGATAAGTAA
>g10969.t1 Gene=g10969 Length=798
MLRSCICIKKERRDSQNSSTSSCRSSEIERNAAAISNLDDDRDNRSFMKFLSSTLCFRIV
RTPRRGMSMTKVERVIKATLLIQRWYRRYMARIEMKRRYTWTIFQNIEYSAEQDQVRLYN
FFNDLLMHMPEAAKQVKDLDEVSTSSAEESLDDDFVDETDDSDDAMDDQKTYRGPHLNLP
LEKQDLDMLINLFRKRKYSLHAKYVALILREAAKKLRRLDNINRASTEIKGSKTVTVVGD
LHGKLDDLLVILYKNGLPSHTNCYVFNGDFVDRGKKSLEVLLILLSCFIIFPGCVMLNRG
NHEDSVMNHRYGFTREVHQKYRHNADRLLKLIDQVYRHLPLGTLINNKIFVVHGGISENT
DLNLIASVRRSKYISILRPPTQPNDDASDFKTEWKQVIDILWSDPIMNDPICPTPNKRGA
GECFGPETTNKFLQRHNLTTLVRSHECKSDGYEIVHNGNVITVFSASNYYEIGSNKGAYI
KFGANSDRYFVQFTAAASKTKKLTFRQQVDNVEKSAIRELKEKLREQKLNLQKQFKMRDV
ENTGHLSLSQWSEAMESVTNYKLPWRLLREKLAVMNENNEILYENTLQLIEIDDDIKIGA
NDSNKITDTMYTNRENLEAIFRMMDLDSNGLISIDEFKQACEMLSAYLPNYDVDQMLENC
RMMDINKDSLVDLNEFLEAFRLSQQSANHTSVIRNSKLIETTVKVDENSIENAKNNSADN
AHDENIKGGDAQVDEYEISEMKEVTSGGRMRKSPSIRSVVSVESLGQTVGNNNETKNDKL
QNDDGVAIEDIISKVDDK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 21 | g10969.t1 | CDD | cd00051 | EFh | 617 | 681 | 8.14435E-13 |
| 17 | g10969.t1 | Coils | Coil | Coil | 514 | 537 | - |
| 16 | g10969.t1 | Gene3D | G3DSA:3.60.21.10 | - | 148 | 527 | 5.6E-94 |
| 15 | g10969.t1 | Gene3D | G3DSA:1.10.238.10 | - | 528 | 689 | 6.4E-17 |
| 29 | g10969.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 145 | 167 | - |
| 30 | g10969.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 145 | 165 | - |
| 28 | g10969.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 743 | 785 | - |
| 31 | g10969.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 757 | 776 | - |
| 3 | g10969.t1 | PANTHER | PTHR45668 | SERINE/THREONINE-PROTEIN PHOSPHATASE 5-RELATED | 67 | 385 | 5.7E-199 |
| 5 | g10969.t1 | PANTHER | PTHR45668:SF2 | SERINE/THREONINE-PROTEIN PHOSPHATASE WITH EF-HANDS 2 | 67 | 385 | 5.7E-199 |
| 4 | g10969.t1 | PANTHER | PTHR45668 | SERINE/THREONINE-PROTEIN PHOSPHATASE 5-RELATED | 387 | 697 | 5.7E-199 |
| 6 | g10969.t1 | PANTHER | PTHR45668:SF2 | SERINE/THREONINE-PROTEIN PHOSPHATASE WITH EF-HANDS 2 | 387 | 697 | 5.7E-199 |
| 11 | g10969.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 234 | 261 | 1.4E-42 |
| 7 | g10969.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 264 | 291 | 1.4E-42 |
| 10 | g10969.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 297 | 321 | 1.4E-42 |
| 9 | g10969.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 334 | 360 | 1.4E-42 |
| 12 | g10969.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 437 | 457 | 1.4E-42 |
| 8 | g10969.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 459 | 475 | 1.4E-42 |
| 2 | g10969.t1 | Pfam | PF00149 | Calcineurin-like phosphoesterase | 234 | 448 | 1.6E-23 |
| 1 | g10969.t1 | Pfam | PF13499 | EF-hand domain pair | 531 | 641 | 3.5E-7 |
| 18 | g10969.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 279 | - |
| 20 | g10969.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 280 | 298 | - |
| 19 | g10969.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 299 | 798 | - |
| 27 | g10969.t1 | ProSitePatterns | PS00125 | Serine/threonine specific protein phosphatases signature. | 298 | 303 | - |
| 26 | g10969.t1 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 625 | 637 | - |
| 32 | g10969.t1 | ProSiteProfiles | PS50096 | IQ motif profile. | 77 | 102 | 6.577 |
| 35 | g10969.t1 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 526 | 561 | 8.293 |
| 34 | g10969.t1 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 612 | 647 | 14.207 |
| 33 | g10969.t1 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 651 | 686 | 8.739 |
| 25 | g10969.t1 | SMART | SM00156 | pp2a_7 | 200 | 497 | 3.5E-104 |
| 22 | g10969.t1 | SMART | SM00054 | efh_1 | 530 | 558 | 29.0 |
| 23 | g10969.t1 | SMART | SM00054 | efh_1 | 616 | 644 | 5.3E-4 |
| 24 | g10969.t1 | SMART | SM00054 | efh_1 | 655 | 683 | 1.6 |
| 14 | g10969.t1 | SUPERFAMILY | SSF56300 | Metallo-dependent phosphatases | 171 | 565 | 2.13E-87 |
| 13 | g10969.t1 | SUPERFAMILY | SSF47473 | EF-hand | 520 | 681 | 1.21E-19 |
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:0016787 | hydrolase activity | MF |
| GO:0005515 | protein binding | MF |
| GO:0005509 | calcium ion binding | MF |
KEGG
Orthology
- This transcript has been annotated with K13807 (serine/threonine-protein phosphatase with EF-hands)
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. There were no conditions that were differentially expressed