General information for g5727.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein phosphatase PHLPP-like protein.
Parent gene
- The parent gene g5727 is located on chr_2: 11429044..11434526 (- 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 | g5727 | g5727.t1 | isoform | g5727.t1 | 11429044 | 11434526 |
| chr_2 | g5727 | g5727.t1 | exon | g5727.t1.exon1 | 11429044 | 11431613 |
| chr_2 | g5727 | g5727.t1 | cds | g5727.t1.CDS1 | 11429044 | 11431613 |
| chr_2 | g5727 | g5727.t1 | exon | g5727.t1.exon2 | 11431669 | 11431822 |
| chr_2 | g5727 | g5727.t1 | cds | g5727.t1.CDS2 | 11431669 | 11431822 |
| chr_2 | g5727 | g5727.t1 | exon | g5727.t1.exon3 | 11431889 | 11432038 |
| chr_2 | g5727 | g5727.t1 | cds | g5727.t1.CDS3 | 11431889 | 11432038 |
| chr_2 | g5727 | g5727.t1 | exon | g5727.t1.exon4 | 11432112 | 11432262 |
| chr_2 | g5727 | g5727.t1 | cds | g5727.t1.CDS4 | 11432112 | 11432262 |
| chr_2 | g5727 | g5727.t1 | exon | g5727.t1.exon5 | 11433828 | 11434129 |
| chr_2 | g5727 | g5727.t1 | cds | g5727.t1.CDS5 | 11433828 | 11434129 |
| chr_2 | g5727 | g5727.t1 | exon | g5727.t1.exon6 | 11434308 | 11434526 |
| chr_2 | g5727 | g5727.t1 | cds | g5727.t1.CDS6 | 11434308 | 11434526 |
| chr_2 | g5727 | g5727.t1 | TSS | g5727.t1 | NA | NA |
| chr_2 | g5727 | g5727.t1 | TTS | g5727.t1 | NA | NA |
Sequences
>g5727.t1 Gene=g5727 Length=3546
ATGGTTATAATAAATGTGTCCATGACAGAAAAGCCATTTATAAGTGACGCAATGAGTGTT
CGATCACAGCGCGGTCGTGTAACATTCTGTGAAGATATCGAAATGGACTCACTTGAGCCG
GAAATAAATGGAATAGTTGGAAAAAATGAATTGGGCACAATTAAAGAATATGAAAATGAA
TATATTGATGAAAATGTTGAAGCATTTCGTGAATATGATGCGACAACAGAAATTTGTGAG
CCAAAACGTATGGATATTTCTGGATCAGGTTTACACATCATTCCTGAAGTGATTTTGCAA
TCAAGTCATTTAGTTGAAGAACTTTTGGCTGACCACAATAAATTACAAGAAAGTGCTCTA
AGAGCATTAGTTGAATTTAAAAAACTTCGTGTGGTACGAATGAGTGCAAATCATTTCAAA
AAATTTCCTGAACAGCTGATGGATATTCAAAATCTAACAGTATTGGATATTTCTAAAAAT
GAAATCGATCGTCTGCCGGATAATATTTTTAAAATGGAAAAATTGGAAGAGTTGAGGATA
GAGCATAATCTGTTAAATAGCTTACCAAACACTTTAAAGTTGCTGCGAAATTTGAAAAGT
TTGCAAGTTGCCAACAACAAAATAAATAAACTTCCAGATTTTATGATCGCAATGAGATTC
AATAATGGAGTGGATTATTCTATTCAAAATCAATTGGACGTGAAGAATGGAATGAAAAAT
AACGATGAAATGTCGAGAATTGACTATAGTAATCCACCACTAAAAAAGCTTAATTTACGA
GCGAATCACCTAAAAGGAAATATAATTCTTGGGAATTTTACTTATCTGACACAACTTGAC
ATGAGCGAAAATAACATCGAATTTCTAGATCTTTCGGCACTCGACAAGATTGAAAGCGTT
CAGTGTTGTAGAAATCAAATCAAAGAACTTACATTAAATGGTCGTGTCTTGAATTCACTT
GTTGCATCAAATAACAATTTATGTCGTTTGATTGTCAAACCACTGCCAAAGAACATTCGA
CATATCGATGTAAGTCACAATCATCTCACCGAAATACCTGAATGGTTAAATTGCTGCACT
CAATTGCGAACTCTATATGCAAACAACAACAATATATCAACGTTGCCAGATAATCTCTTT
CAAAATGAAAATGGCATGCTGCACACAATTCAATTAGCCTGCAATCGACTATCTCGTTTA
CCATCAATGCCTAAAAAATCGCTTCCTCTGCAAGAACTTTATGTCAATGGAAATCAAATT
GAAGATTTGCCAGAATTTTTCTTCACTGCATGCGAGAATTTAATTTTGCTGAATGTTTCA
AGTAATAAGTTACTGACATTGCCAATAATTGATGGAGCAAGAAGTCAGTTGGAGAGGTTA
TATGCGACAAACAATTGTCTGACGGACAGAGTCCTTGACACTTTAGTTCATCTCATGAGT
TTAAGAGTTTTGCATTTATCATATAATCGACTAACTGCTTTGCCTGAAAGTTGCATCAGT
AGCTGGCCTGAACTTGAAGAACTTAACATTTCTGGAAATAAATTACAACATTTACCTGAT
AATCTTTCAAATTTAAGAAGTCTTCGTGTTCTGCGTGTTCATTCAAATCAACTACAATCA
ACACCAGCTTTATCCAAAATAGCATCATTAAGAGTTCTTGATTTGGCACACAATCAACTT
GATAAAATAAATTTAAACGTCCTTGTGTCTAAAAAATTACAATTTCTCGATTTGTCTTGC
AATAATCAACTTCAAGTTGATGCAAAACAATTACAAAGTTGTCGATCACAAAGACCAATG
AGCCTTGTCGATGTATCTGGAAAAAATCGGCCATCTTTACCAACTACACCTCAAATAAAT
CATGAAAATCAAGAAATTGATCCACCATGGAAAGTTGGGTTTTCTGAAACTACTGGAAAT
TCTAACAAGCTTTATATTGCTCAATTGAGATTACCTGGATTTTGTAATGTTGAAGGTCTT
TTTGGAATGTTTGATGGTGAAGTTAATAACACAATTCCAAATACATTAGTTAAAGTGACA
CCAAAGATTTTACTTGAAGAGAGAACTGTGAAAGAAACAGCCAGTGAATATATGAAATAC
ACTTTATTATCTGCACATCGTGAACTGAAACAGCAAGGACAAAAATTTGGCATTACTGGC
ACAATTTGTCATATTTCACGAACAAAAGTTCCACCAGATTCTTGTAATTACAATCATCAA
TCAAATGGCAGGCGTTTTATTTTAAGAGTTGCTTCTGTTGGTGAAGGTATCGCAATTTTA
GTTCGTCAAAATAATGTGCTGAAATTAACTAAGGGAAATTGTAAAACTAAAATTGGTGCA
AGTTATAGCTTTCCTAATGTTCTTCCCGATCCTGAATGCAATGAAATAATTCTTGGCGAT
CATGATGAATATTTAGTTATAGCAAATAAAAAATTATGGGAAGTGCTGACACCAAATGAT
GTTGCAAATGAAATTCGTAAAGAAGAAAATGTTTTGCTTGCATCGAAAAGATTGCAAGAT
GTTGCTCAGAGTTTTGGCGCCGAGGAGAATTTGAGCATTATTGTTGTAAAGTTCAACAAT
CTCGGTACGGACATTGACTTTTTAATGCGAGAGTTACGTCATACAATAAGAAAGAAACCC
AATGGAAGTGTAATTTCCGGATTTTGCAAGTGTGGTTGCTGTTGTGAAGCGAGTAATTGC
TGCCACTCAAACAATGGTCAGTTCACGCGTCAGCCTTCCGCACGAAGCGATCGTTCATCA
CCGAGTGGCCAAAGTGATCAAGCATCAATCAGTGACAATCAATCTCAGGCAACAAAATCA
AAAGATGGAAACATGTCTACTATCGGAAGTGCAGCTTCAAAATCAATTTTAGGTATTGAT
AAGAAAAATGTAAGGAATGGAATCGCAAGAGCCGTAAGAGCTAGAATTGAAGAAGAGCGT
GAAAATGAATCAGATTCTCAAATGTCAGAAGAACAATTTAAATGTTGGGAATATATGTTA
GAGCAAAATACTCAATTGCTTTTTGATAAAGAACTGAATACAATTTCAAAAGCATTTACC
AAACGAAATCAATCGAATTTAAATCGCAAACACGTTAGATCGCTGTCAACCTCAACACCA
ATTATTCACAATCAATTGGATCCAAAATCAAATTTTGGAAACTTCTCATCGATTCTCAGT
CCGCCAAATCATTCAAATTCATCACTCAATTTGAGTACAATTCATCAACCTGTTGATTTG
CAGACACAAAACGCCTTCTTGTCAAAACATTTTGGTAGTGCACGTTCATTTCAACCACAA
ACACAAAATATTTTTAAGCCAATTCGTATAACACCAACGGGTGCAAGTCGTTTATCACAA
GGTCATCCGATGTCTGGTGGAATTCATGCAGCATATTTTGGCTCCCTACAACGTCTTATG
CCTTATAATTTAGAATATGATTTTGGTATGATTCAAGAACGACCAGCATTGGAAGAAGTT
GAAACAATTCCTGATGCTGAAAGTAGAATGCAACAATATTGGGGTGTTGCAACCACTGAA
TTATAA
>g5727.t1 Gene=g5727 Length=1181
MVIINVSMTEKPFISDAMSVRSQRGRVTFCEDIEMDSLEPEINGIVGKNELGTIKEYENE
YIDENVEAFREYDATTEICEPKRMDISGSGLHIIPEVILQSSHLVEELLADHNKLQESAL
RALVEFKKLRVVRMSANHFKKFPEQLMDIQNLTVLDISKNEIDRLPDNIFKMEKLEELRI
EHNLLNSLPNTLKLLRNLKSLQVANNKINKLPDFMIAMRFNNGVDYSIQNQLDVKNGMKN
NDEMSRIDYSNPPLKKLNLRANHLKGNIILGNFTYLTQLDMSENNIEFLDLSALDKIESV
QCCRNQIKELTLNGRVLNSLVASNNNLCRLIVKPLPKNIRHIDVSHNHLTEIPEWLNCCT
QLRTLYANNNNISTLPDNLFQNENGMLHTIQLACNRLSRLPSMPKKSLPLQELYVNGNQI
EDLPEFFFTACENLILLNVSSNKLLTLPIIDGARSQLERLYATNNCLTDRVLDTLVHLMS
LRVLHLSYNRLTALPESCISSWPELEELNISGNKLQHLPDNLSNLRSLRVLRVHSNQLQS
TPALSKIASLRVLDLAHNQLDKINLNVLVSKKLQFLDLSCNNQLQVDAKQLQSCRSQRPM
SLVDVSGKNRPSLPTTPQINHENQEIDPPWKVGFSETTGNSNKLYIAQLRLPGFCNVEGL
FGMFDGEVNNTIPNTLVKVTPKILLEERTVKETASEYMKYTLLSAHRELKQQGQKFGITG
TICHISRTKVPPDSCNYNHQSNGRRFILRVASVGEGIAILVRQNNVLKLTKGNCKTKIGA
SYSFPNVLPDPECNEIILGDHDEYLVIANKKLWEVLTPNDVANEIRKEENVLLASKRLQD
VAQSFGAEENLSIIVVKFNNLGTDIDFLMRELRHTIRKKPNGSVISGFCKCGCCCEASNC
CHSNNGQFTRQPSARSDRSSPSGQSDQASISDNQSQATKSKDGNMSTIGSAASKSILGID
KKNVRNGIARAVRARIEEERENESDSQMSEEQFKCWEYMLEQNTQLLFDKELNTISKAFT
KRNQSNLNRKHVRSLSTSTPIIHNQLDPKSNFGNFSSILSPPNHSNSSLNLSTIHQPVDL
QTQNAFLSKHFGSARSFQPQTQNIFKPIRITPTGASRLSQGHPMSGGIHAAYFGSLQRLM
PYNLEYDFGMIQERPALEEVETIPDAESRMQQYWGVATTEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 34 | g5727.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 73 | 244 | 1.3E-24 |
| 33 | g5727.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 245 | 444 | 1.8E-29 |
| 35 | g5727.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 452 | 621 | 8.7E-28 |
| 36 | g5727.t1 | Gene3D | G3DSA:3.60.40.10 | Phosphatase 2c; Domain 1 | 622 | 861 | 2.2E-12 |
| 32 | g5727.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 912 | 947 | - |
| 4 | g5727.t1 | PANTHER | PTHR48051 | - | 83 | 328 | 4.9E-64 |
| 5 | g5727.t1 | PANTHER | PTHR48051 | - | 322 | 621 | 4.9E-64 |
| 2 | g5727.t1 | Pfam | PF13855 | Leucine rich repeat | 151 | 208 | 1.3E-8 |
| 1 | g5727.t1 | Pfam | PF13855 | Leucine rich repeat | 480 | 538 | 1.3E-12 |
| 3 | g5727.t1 | Pfam | PF00481 | Protein phosphatase 2C | 783 | 850 | 1.0E-7 |
| 44 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 151 | 172 | 7.342 |
| 46 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 174 | 195 | 7.281 |
| 41 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 197 | 218 | 6.811 |
| 51 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 253 | 274 | 4.809 |
| 38 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 275 | 295 | 6.133 |
| 40 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 338 | 359 | 7.427 |
| 50 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 361 | 382 | 7.596 |
| 43 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 386 | 407 | 5.671 |
| 52 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 409 | 430 | 7.027 |
| 42 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 433 | 454 | 6.033 |
| 48 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 456 | 479 | 5.425 |
| 47 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 480 | 501 | 7.227 |
| 49 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 504 | 526 | 7.966 |
| 53 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 527 | 548 | 6.31 |
| 45 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 549 | 569 | 7.812 |
| 39 | g5727.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 572 | 593 | 5.494 |
| 37 | g5727.t1 | ProSiteProfiles | PS51746 | PPM-type phosphatase domain profile. | 631 | 858 | 18.625 |
| 16 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 149 | 168 | 30.0 |
| 21 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 149 | 172 | 1.3 |
| 17 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 172 | 191 | 36.0 |
| 28 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 173 | 194 | 300.0 |
| 9 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 195 | 214 | 5.9 |
| 29 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 195 | 218 | 5.6 |
| 30 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 273 | 296 | 99.0 |
| 25 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 335 | 359 | 22.0 |
| 19 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 336 | 355 | 8.3 |
| 12 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 359 | 378 | 7.1 |
| 24 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 360 | 382 | 0.32 |
| 13 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 387 | 403 | 590.0 |
| 15 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 407 | 426 | 3.8 |
| 27 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 408 | 430 | 27.0 |
| 10 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 431 | 450 | 86.0 |
| 14 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 478 | 497 | 3.3 |
| 22 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 478 | 501 | 0.068 |
| 20 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 502 | 524 | 17.0 |
| 18 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 503 | 521 | 2.0 |
| 11 | g5727.t1 | SMART | SM00364 | LRR_bac_2 | 525 | 544 | 63.0 |
| 26 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 525 | 546 | 41.0 |
| 23 | g5727.t1 | SMART | SM00369 | LRR_typ_2 | 547 | 570 | 29.0 |
| 31 | g5727.t1 | SMART | SM00332 | PP2C_4 | 619 | 856 | 4.0E-7 |
| 8 | g5727.t1 | SUPERFAMILY | SSF52058 | L domain-like | 83 | 333 | 2.21E-27 |
| 7 | g5727.t1 | SUPERFAMILY | SSF52058 | L domain-like | 301 | 598 | 8.5E-45 |
| 6 | g5727.t1 | SUPERFAMILY | SSF81606 | PP2C-like | 627 | 861 | 1.44E-22 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5727/g5727.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5727.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
| GO:0016791 | phosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K16340 (PH domain and leucine-rich repeat-containing protein phosphatase)
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.
