General information for g6062.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as TGF-beta-activated kinase 1 and MAP3K7-binding protein 1.
Parent gene
- The parent gene g6062 is located on chr_2: 13969713..13971461 (+ 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 | g6062 | g6062.t2 | isoform | g6062.t2 | 13965388 | 13969713 |
| chr_2 | g6062 | g6062.t2 | exon | g6062.t2.exon1 | 13965388 | 13965394 |
| chr_2 | g6062 | g6062.t2 | exon | g6062.t2.exon2 | 13968163 | 13968484 |
| chr_2 | g6062 | g6062.t2 | cds | g6062.t2.CDS1 | 13968327 | 13968484 |
| chr_2 | g6062 | g6062.t2 | exon | g6062.t2.exon3 | 13968543 | 13969713 |
| chr_2 | g6062 | g6062.t2 | cds | g6062.t2.CDS2 | 13968543 | 13969713 |
| chr_2 | g6062 | g6062.t2 | TSS | g6062.t2 | NA | NA |
| chr_2 | g6062 | g6062.t2 | TTS | g6062.t2 | NA | NA |
Sequences
>g6062.t2 Gene=g6062 Length=1500
AAAACAAAAAAGAATTTATTTTAATTTTATTGCCTTTTAAAAGAAGTATTTTATTAAATT
GTTGCAATACATTGAAGAAACAAAAGCATTTAAAGTCATTTAATACAAATTTATCTTAAT
TCAAAATCATATTATAGTGTTTTTGTATATAAATTTTAAATCATAACAAAGATGACTCAT
TTTAATCGTTCATGGACTGAAGATTTACCGATTTGCTCAAGCACTGGTTGTGGAGGTGTT
ACAAATCAAATGTATTCACCGGATGGAAGAATGAAAGAGATGCATGTTAATTATGAAAAG
AAATGCTATTGCTCATATGATACTGAGACTTTTCTTTACTCAATATGTTCGGGTTTTAAA
GGATCGTCGATAAGTGACTTTGCACTTTCAAGAATGACAGCCGATATACTTTTAGGTGGT
CAATTAAATCAATCAGACAAATCTGATGAGTACATTAAGGAATTGCTCAAACAAACATAC
ATATCTGCTGAAAAAGGCTATAACACTTCCATTGATAATTTGATTGCTACAAAACAACAA
CTTCAATTTCAAATTCTCGATTTGAACCAATCAATCAACGAAATTTCACAACGACATCAA
GATGTGCTCAATAGACTCAACACTATAAATCGAGAGCTATCAATAGGTTCATCTGTGCTT
ATTGCATTAATTACAAACAAAAAATTATTTATCGCAAATCTCGGCATTTGTCGTGCACTT
TTAGTTAAAAATGACATGAGAAATGATGTGCTTCGAGTGATTCAAGTTACAGTCGATCAT
AATTTACAAAATGAAGATGAATTTGTGCGTTTATATAATTTAGGACTTGATGTACAATCA
TTACAATCATTAAGTAGCACAAGAATGATTGGAAATTATATGGGTAAAGGAGGATATAAA
GATTCTGCACTCTTTTCACAATCGGTTGGTGAACCTATATTAAGCACTCCTGAAATATGC
GGTCCAATTTCACTTGATGAAGATGTACGATTTTTACTTTTACTTAGTGGCGGACTTTGT
AAAGTTCTTTCACAATTATTTTCAAGTGATTTAACTATAGTCAATAAGGAATTAGTACAA
ATTGTTGTACAACAATTTAACAAGCAAAGTACACTTGTAGGTGTGGCTCAAAGTGTTGTT
AACATTTTAGCTCAACTACATCATGATCTTTATATGAAATCAAAAGTCAGTGGAATAGAA
AGTAATTTCGAATCACGTGAAGATATGACTTTATTAATAAGAAATTTTTCATTTCCAATG
CCTAATAGCATTGAAAAAAGTTCAAAAAGTTCAACAGCATCTTCAACAATTTCTGGAAGT
CAGAATCAAATTGACACAATAACTTCATATTCTTCAACTAATACAAGTGTCAATTATACA
CCAGATAGAAAAACTAAACCATATGTGTCTTTTAAAGAATATTTTGCCAATGTTGAACTA
GCTAGAAAAGAGAATCGACTTCCAAAAGGAATAGATTTTGATGATGAACCATTAGAATAG
>g6062.t2 Gene=g6062 Length=442
MTHFNRSWTEDLPICSSTGCGGVTNQMYSPDGRMKEMHVNYEKKCYCSYDTETFLYSICS
GFKGSSISDFALSRMTADILLGGQLNQSDKSDEYIKELLKQTYISAEKGYNTSIDNLIAT
KQQLQFQILDLNQSINEISQRHQDVLNRLNTINRELSIGSSVLIALITNKKLFIANLGIC
RALLVKNDMRNDVLRVIQVTVDHNLQNEDEFVRLYNLGLDVQSLQSLSSTRMIGNYMGKG
GYKDSALFSQSVGEPILSTPEICGPISLDEDVRFLLLLSGGLCKVLSQLFSSDLTIVNKE
LVQIVVQQFNKQSTLVGVAQSVVNILAQLHHDLYMKSKVSGIESNFESREDMTLLIRNFS
FPMPNSIEKSSKSSTASSTISGSQNQIDTITSYSSTNTSVNYTPDRKTKPYVSFKEYFAN
VELARKENRLPKGIDFDDEPLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g6062.t2 | CDD | cd00143 | PP2Cc | 45 | 332 | 2.48802E-28 |
| 6 | g6062.t2 | Coils | Coil | Coil | 121 | 155 | - |
| 5 | g6062.t2 | Gene3D | G3DSA:3.60.40.10 | Phosphatase 2c; Domain 1 | 4 | 362 | 2.0E-73 |
| 2 | g6062.t2 | PANTHER | PTHR13832:SF780 | TGF-BETA-ACTIVATED KINASE 1 AND MAP3K7-BINDING PROTEIN 1-LIKE PROTEIN | 5 | 392 | 3.9E-90 |
| 3 | g6062.t2 | PANTHER | PTHR13832 | PROTEIN PHOSPHATASE 2C | 5 | 392 | 3.9E-90 |
| 1 | g6062.t2 | Pfam | PF00481 | Protein phosphatase 2C | 80 | 321 | 6.6E-22 |
| 9 | g6062.t2 | ProSiteProfiles | PS51746 | PPM-type phosphatase domain profile. | 24 | 359 | 15.905 |
| 8 | g6062.t2 | SMART | SM00332 | PP2C_4 | 17 | 357 | 9.5E-16 |
| 4 | g6062.t2 | SUPERFAMILY | SSF81606 | PP2C-like | 36 | 356 | 4.32E-25 |
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:0006470 | protein dephosphorylation | BP |
| GO:0016791 | phosphatase activity | MF |
| GO:0004722 | protein serine/threonine phosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K04403 (TAK1-binding protein 1)
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.
