General information for g5931.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tyrosine-protein phosphatase non-receptor type 7.
Parent gene
- The parent gene g5931 is located on chr_2: 12893662..12895485 (- 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 | g5931 | g5931.t1 | isoform | g5931.t1 | 12889164 | 12893875 |
| chr_2 | g5931 | g5931.t1 | exon | g5931.t1.exon1 | 12889164 | 12890030 |
| chr_2 | g5931 | g5931.t1 | cds | g5931.t1.CDS1 | 12889164 | 12890030 |
| chr_2 | g5931 | g5931.t1 | exon | g5931.t1.exon2 | 12890090 | 12893875 |
| chr_2 | g5931 | g5931.t1 | cds | g5931.t1.CDS2 | 12890090 | 12893875 |
| chr_2 | g5931 | g5931.t1 | TSS | g5931.t1 | 12894404 | 12894404 |
| chr_2 | g5931 | g5931.t1 | TTS | g5931.t1 | NA | NA |
Sequences
>g5931.t1 Gene=g5931 Length=4653
ATGGAATATTATAAAAATGTCCGTTCACGAGTTTCATCCTCTTCATCCCCACACGCTTTT
TCGAGTAAACGCTTTTTTCGATCAGCAAACTTAATAAGAGAGTATAAAAACAATTTTCAA
TATTTTGAACGACACGATAATAGTTTCGAACATACAAAAAGGAATCTAAAAGGATCAAAT
GTGAACAGTGATATTATTCAACATAACGTGAATAGTAATGATAATGAAAATGTTAATCAT
AATAATAATAACAATTTGATATCTTACGAACATTTAAGTGAATCGTGGATTGATTTAGTG
TTACCCTTTACAATTTTGGCCATAACTATACTCGCAGTGGTGTTTATCGCTGCCATTTTA
TTTATTTGGATTCAAAAATACTTTCGCGAAAAGCGTGAAAAAAGCCAAATTATTGAGGAA
AAAATTCAACAATCAAAAATTTATTGCGCAAAGAAAAAGTGCGAAAAAGTTAGTAATAAT
AATAATCGTAGTAAAATGAACAGTCGAAAGTGGCTGAAAGAAAAATCAAAGCAAATTGCA
AATCAAATTGTCAATGATGATATTGAGCAGAAATTAGAAACAGTTGAGTTCAAGAGTACT
CCACCGACATCACCAAACTCACAAAAAATAAACGAACAAAATGACGATGAAGATGATGAA
GAGCAGCAGCAATTGCATGAGGACGATTGTGAACAAATCAAGATATCTGAGATTAAAACT
GAAAAAGAGACGAGTACTGCCACAATAATACAATGTCCATTGGCAATAAGTGACATTAGT
ATTGCCAGTACTATTCAACCTCAAATATTATCATCTGAGTTGTCATCACAAATACAACAA
GTCGCCTCTTCGTCATCATCGCTCTCATTATTACAGGAAGAAGTGCATTGCGTACAACCA
AGAGAGGAGCAATCACAAAAAATTTATAAATCAATCGCAACTTCACCGCCTCCATTTAGT
CCAATTGTTGCTCATCATCATGCGTTGCATCATAAATATGCAACGACAGGAACACAAACA
TATTTCACAAAAGCTCCCAATAGTCCAAATAATCTTTTAAGCTCATCATTCGCTGTTCTT
CAAACTCCTACTAATGCATCGAGCGGTTCATTTATACTTTCACCATCATACGATAATAAA
GAAAATAAAGAACCATCATCTGCAAAACTACGAACAGTTTGTTTAAATAAGACGATAAAT
ACTTTCAAGAATGATAATATAGAGCCGCTTATGGGAACAAGTGGAGGAACAAGTAGTTCA
GCATCATCTCCTTCATCTGTCATTTCAACTTCGCCAAAAGTTAACACAAATGTCTTGCAA
CAGCAAAACTCACCGAAAATTGTTAGTGTATATACAAATACAGGCAGCCCACAAGTTACA
TCGGCAACTCAAAAAAGTGGAAATTTTTTTCGCTTTCCTGACATCGAAACAACGGTAGCA
ACAACAACATCGCCTTCACTTAAAGCTAGCCTTGAAAAGCAGCATTCGATGACAACCAAC
ACTTCAATGGACTCTATGGATGTGCCAATAACCAAAGCATTTGAAAATTTAAATATTGAA
AATGTCATCACCAACGACAAAGAAAGTATAATATTGAAAATCGATGAAGTAGAATCGCCT
GCAAATGAAAGATCACCATCGGTTTTCACTGACTCTTCTACGGGTAGTAATAAAGATAAT
AATAATCTGAACAACAACAATAACAATAATAGTGAGAATACATTGACCATACGACGTGCA
CGGCTCAAATCAATTTCATTAGATTCGGACGGTGCACGATTAGTTGAGGAAAATCTTACG
ATGCCCGTTGAAGAACTTGTCGAAATTGCATCTTATAGTAATAAGCAAATTAAGGATCTT
ACAGAAATGGAAAGCTGCAGTTCAGCAGCAAGTTGTGCCAACAACAATAATAATAATAAT
AATCGTTTTAATCCAAAGAATATTTATAATCTTACAATTAATCTTGACTTTCGAGATAGC
TCATTGGACATGACAGGTGGTGGTATTGATGATATTAATATGAATCAAGATCAACAAGAG
TATGATGAGACAGATGATGGTATTTGTCGAACTCCAACAATGAAATATTTCAAACAGAAA
AAGGCTGTGTCATTGGATTCTGATAATCAAGAAGGTGGAAAAATAATTGCGATGCAACAA
TTTGCCGGCAAAACTGCATCGACCGAAACATTCAACTATTATTTTGGACAGAGTAGTAAT
AAAATGAACAGTTCTATATCTGTTCCATCAACTCCAAAGCATCTGACTTCAAATAAACTT
AAAATATCAACTAATGAAGAAAGAAGTACAACATCACATAGTTGTGGACGATATAGTCGA
AAATTGGGAAGTTTCGAAGAAAATGCAGATGATAATGGTCATCATCATGTGACTACAACA
ACTAGCATAACCACTCATACTCAGCAATCATACAAAAGTAATTTGACTGCTTCAATTCAA
ACACTTAACATAAGTTCTAGTAATTTAAAAACTCTGCCTGAAATTATGAGCATAAACGAT
TTTGATGCAAACCAATCGTTAAAACCAACAACTAGAATTGGTCCACCTACGTCTATTCCA
CCTTCAAAAAGTGGTATTCTTCAACGTCGTGGTTCAAATCATAGTCTTACTTTAAATTTA
GATGGTAGTTGTGGAAATTTGGCGAGAGGATTGAGTTGTAGTAATTACAGTCTTGGTAAT
ATACATAGCTCGCATCTTAACATTGCCGGATCAAATTACAATCTTCAAAATCAACCAAAT
CATCGAGTCATGACTGTAAAGAAAAATCTTTTACAACGACGTGGATCTAATACGAGCTTA
ACACTTAACATTCAAGGCTCGAACAACAATTTGAATCGATTTAACAGTCATAGTTCACTG
AATATCACTGGATCATCACAGAAAAAGGGTGGTTTGTTAGAGCGTAGAAATTCAAATGCA
AGTCTCACTCTCAATATTCAAAATCGTGGATTATCGATCAGCAATTGCAATCTACGTGGG
TCTGAATGTAGTTTAAGCAGTGTCAATACAAATCAAATGGCAGAACTTATGATGTTAGAA
CAAGAAGCTGAACATCAAGAGGTAGAAAATCAAGGAAATGAATGTGATAAATACTCGCGC
CAGCGGAAATTTCTAAGCTCTGAGAATCTCCATAGTATTCGTTCAAATACAATGAGCATT
AATAGTGGTCATCGGCAACAAAGTCAACATCAAACTCCATATGGATCAATTGACAACTTG
AAACAAACTCAACCATATCATGAGAAAATTCCAGTTATTAGCACAAAGCCACTTAGTCCA
CAAAGTACATCTGAAGACTTTAAAATCTATTTAGCAAACATTCAATTTCTTCAAAGTGCT
TCCAATGTATTGGACGAAGAACATTTAGAAACATTGAATGCATTATTTCAAAAATCATAT
AAATCTAAAGAAACTAGTACATCACAGCCAATTGAAAGTAGCAGTACAGGACAGCAATTA
CAACATCATCAGAGACAATTTAATAATGACGACATTTTAAATAATAAATACAGCACTGAT
GGTTCTATAATTTCATTTAGTGGCAATTCATCAAATTCACCAGATGAAGATCAAAAGCAG
CTCCTTATTAAACTTCATCAAGAATTTTGGAATTTGCCAACAAATTATCAAGAAAAGCCT
ATGGTTTTTGGATCACAATCAAAGAATCGCTATAAAACAATATTACCAAATGAACATTCT
CGTGTGATATTACAAAAAGAAGAAGGTGCACAGCAAGAACCATATATAAATGCAAACTTT
ATTAAGGGGCCAGATTATACATCTGATTGCTATATTGCAACTCAAGGACCGATGCAAAAT
ACTGTTTATGAATTCTGGCTAATGGTTCTACAAAATATTCAAAAGAAGAAAGATTGTGGT
GTTCAAAAAATTGCTATGCTTACCGACTTTATTGAAAGTCAGCGTCAAAAATGTGCGGTG
TACTTTCCAATAGAACAGGGAAAATGTGAAGTTTTTGCCAGTACAGGTTTGTTAAAAGAT
GAAAGCTTCATTCGTGATAATTTGGATAAAATTTTGGAATCATCAACGATGGAGAATCAA
GAAAAACTTGCAGAAATGCCAAAGATTTCATTTAATTATTTTATAATTAAGAATAATGGA
TTAAAACAGAAAAATGGATATTCAATAAGAAAACTCACACTTTATTATAGAAATATTCAG
AAAGAAAAACTACAGCAATATACAATTTATCATTATTGGTTTCCTGATTGGCCGGATCAT
CGTTCACCGCAAGACATAGATGTTCTTCTTGATATGAGCTTAGAACTTCTTGATGGCAAC
TGTACAGATGATTTTCTCGAACAAGATGAAAAAAATTTAGAGGTTGTCAGCAATGTTAAT
GCAAAGGAATGTATTTTTAATTCCGAGAAAAATCCTCTCCCAATAATTCATTGCTCAGCG
GGAATTGGGCGAACAGGATGTTTAGCAGCTATTTTAAATGGTCTTGGACAAATTCGAGCG
AATAGTAATGGTGAAGGAACATCAGTTGATGTATTGGGAATTGTGTGCAATTTAAGACTG
CAGAGAGGTGGAATGGTGCAGAATAGCGAGCAATATGAGCTCATTCATAGATCTTTGTGT
CTCTATCAGCAAAAATTGAAAAGTAAAAAGTAA
>g5931.t1 Gene=g5931 Length=1550
MEYYKNVRSRVSSSSSPHAFSSKRFFRSANLIREYKNNFQYFERHDNSFEHTKRNLKGSN
VNSDIIQHNVNSNDNENVNHNNNNNLISYEHLSESWIDLVLPFTILAITILAVVFIAAIL
FIWIQKYFREKREKSQIIEEKIQQSKIYCAKKKCEKVSNNNNRSKMNSRKWLKEKSKQIA
NQIVNDDIEQKLETVEFKSTPPTSPNSQKINEQNDDEDDEEQQQLHEDDCEQIKISEIKT
EKETSTATIIQCPLAISDISIASTIQPQILSSELSSQIQQVASSSSSLSLLQEEVHCVQP
REEQSQKIYKSIATSPPPFSPIVAHHHALHHKYATTGTQTYFTKAPNSPNNLLSSSFAVL
QTPTNASSGSFILSPSYDNKENKEPSSAKLRTVCLNKTINTFKNDNIEPLMGTSGGTSSS
ASSPSSVISTSPKVNTNVLQQQNSPKIVSVYTNTGSPQVTSATQKSGNFFRFPDIETTVA
TTTSPSLKASLEKQHSMTTNTSMDSMDVPITKAFENLNIENVITNDKESIILKIDEVESP
ANERSPSVFTDSSTGSNKDNNNLNNNNNNNSENTLTIRRARLKSISLDSDGARLVEENLT
MPVEELVEIASYSNKQIKDLTEMESCSSAASCANNNNNNNNRFNPKNIYNLTINLDFRDS
SLDMTGGGIDDINMNQDQQEYDETDDGICRTPTMKYFKQKKAVSLDSDNQEGGKIIAMQQ
FAGKTASTETFNYYFGQSSNKMNSSISVPSTPKHLTSNKLKISTNEERSTTSHSCGRYSR
KLGSFEENADDNGHHHVTTTTSITTHTQQSYKSNLTASIQTLNISSSNLKTLPEIMSIND
FDANQSLKPTTRIGPPTSIPPSKSGILQRRGSNHSLTLNLDGSCGNLARGLSCSNYSLGN
IHSSHLNIAGSNYNLQNQPNHRVMTVKKNLLQRRGSNTSLTLNIQGSNNNLNRFNSHSSL
NITGSSQKKGGLLERRNSNASLTLNIQNRGLSISNCNLRGSECSLSSVNTNQMAELMMLE
QEAEHQEVENQGNECDKYSRQRKFLSSENLHSIRSNTMSINSGHRQQSQHQTPYGSIDNL
KQTQPYHEKIPVISTKPLSPQSTSEDFKIYLANIQFLQSASNVLDEEHLETLNALFQKSY
KSKETSTSQPIESSSTGQQLQHHQRQFNNDDILNNKYSTDGSIISFSGNSSNSPDEDQKQ
LLIKLHQEFWNLPTNYQEKPMVFGSQSKNRYKTILPNEHSRVILQKEEGAQQEPYINANF
IKGPDYTSDCYIATQGPMQNTVYEFWLMVLQNIQKKKDCGVQKIAMLTDFIESQRQKCAV
YFPIEQGKCEVFASTGLLKDESFIRDNLDKILESSTMENQEKLAEMPKISFNYFIIKNNG
LKQKNGYSIRKLTLYYRNIQKEKLQQYTIYHYWFPDWPDHRSPQDIDVLLDMSLELLDGN
CTDDFLEQDEKNLEVVSNVNAKECIFNSEKNPLPIIHCSAGIGRTGCLAAILNGLGQIRA
NSNGEGTSVDVLGIVCNLRLQRGGMVQNSEQYELIHRSLCLYQQKLKSKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g5931.t1 | Coils | Coil | Coil | 1009 | 1031 | - |
| 19 | g5931.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 195 | 229 | - |
| 18 | g5931.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 196 | 210 | - |
| 17 | g5931.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 540 | 572 | - |
| 21 | g5931.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 543 | 572 | - |
| 20 | g5931.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1145 | 1165 | - |
| 2 | g5931.t1 | PANTHER | PTHR46198 | - | 1204 | 1548 | 3.1E-61 |
| 4 | g5931.t1 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 1254 | 1261 | 1.5E-18 |
| 6 | g5931.t1 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 1407 | 1424 | 1.5E-18 |
| 7 | g5931.t1 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 1473 | 1491 | 1.5E-18 |
| 3 | g5931.t1 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 1509 | 1524 | 1.5E-18 |
| 5 | g5931.t1 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 1525 | 1535 | 1.5E-18 |
| 1 | g5931.t1 | Pfam | PF00102 | Protein-tyrosine phosphatase | 1226 | 1538 | 4.6E-51 |
| 10 | g5931.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 98 | - |
| 12 | g5931.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 99 | 124 | - |
| 11 | g5931.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 1550 | - |
| 16 | g5931.t1 | ProSitePatterns | PS00383 | Tyrosine specific protein phosphatases active site. | 1476 | 1486 | - |
| 23 | g5931.t1 | ProSiteProfiles | PS50055 | PTP type protein phosphatase family profile. | 1225 | 1542 | 34.288 |
| 22 | g5931.t1 | ProSiteProfiles | PS50056 | Tyrosine specific protein phosphatases family profile. | 1450 | 1533 | 16.886 |
| 15 | g5931.t1 | SMART | SM00194 | PTPc_3 | 1204 | 1544 | 7.2E-68 |
| 14 | g5931.t1 | SMART | SM00404 | ptp_7 | 1408 | 1541 | 2.0E-25 |
| 8 | g5931.t1 | SUPERFAMILY | SSF52799 | (Phosphotyrosine protein) phosphatases II | 1204 | 1547 | 7.36E-63 |
| 13 | g5931.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 99 | 121 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5931/g5931.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5931.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006470 | protein dephosphorylation | BP |
| GO:0016311 | dephosphorylation | BP |
| GO:0004725 | protein tyrosine phosphatase activity | MF |
| GO:0016791 | phosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K20220 (tyrosine-protein phosphatase ERK)
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.
