General information for g1939.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein kinase Warts.
Parent gene
- The parent gene g1939 is located on chr_3: 13981842..13985567 (+ 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_3 | g1939 | g1939.t1 | isoform | g1939.t1 | 13981842 | 13985567 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon1 | 13981842 | 13981865 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS1 | 13981842 | 13981865 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon2 | 13982030 | 13982128 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS2 | 13982030 | 13982128 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon3 | 13982200 | 13984273 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS3 | 13982200 | 13984273 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon4 | 13984337 | 13984457 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS4 | 13984337 | 13984457 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon5 | 13984516 | 13984631 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS5 | 13984516 | 13984631 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon6 | 13984687 | 13984762 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS6 | 13984687 | 13984762 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon7 | 13984825 | 13984889 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS7 | 13984825 | 13984889 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon8 | 13984954 | 13985084 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS8 | 13984954 | 13985084 |
| chr_3 | g1939 | g1939.t1 | exon | g1939.t1.exon9 | 13985151 | 13985567 |
| chr_3 | g1939 | g1939.t1 | cds | g1939.t1.CDS9 | 13985151 | 13985567 |
| chr_3 | g1939 | g1939.t1 | TSS | g1939.t1 | NA | NA |
| chr_3 | g1939 | g1939.t1 | TTS | g1939.t1 | NA | NA |
Sequences
>g1939.t1 Gene=g1939 Length=3123
ATGTTTATTTCTGAAAAATTCCTGGATGTACATAGATTAAAATTAACAAATGGACGACCA
GAAGCAATCGCAGAGTTTTTAAAACAGGCAACTGAACAACAATTACTAAATGGACATGGA
AAGGCACCTGCATTAGCTCCAAAATTAATAAGAAAACCTTCTATCGAGAGAGAAATACCA
TCAAATTCATTGCATTTGCCAAGAAATAGTCCAGCATTAGATTCATGCACAAATTCAGTA
GCTGGAAGCAGTCGATCAGATAGTCCTTCAACAGCTAACCAACAACATTTGCTTGCAAAT
AGTAGCAGAGCTACTAGTGTCAATGCACCATATTCGCCTTCACCTTGTCCATCACACTCT
AGTTATAATGAAATCCCTCCAATTCCACCACCTCGGTCGTCAGCAAGTTCTACCCCATCG
CCTTATCAACAATATTTTAAACAAAGAATGTCACCAGCTGCTCCATCAAGAGTTATGCAT
CAATCACAAAATGCATCGCCAGTAACGACAACTAATGGCAATATGAGACAAGGAATGCTT
ATGCAAGGAAGAACGCCTGGTGTTCAACAACAGCAACAATTACAAGCTCTTTCACTCTAT
CAAAATGGAAATTCAATAAGTGAACCACCTCCGCCTTATCCGATCATTAATTCTCATTCT
CATACACCACTCGCTCCACCAAGTTATAATGCTTCAATACACAGTAGACAAAGTCCTACA
CAAGATTATCGAAAAAGTCCTAGTTCGGGAATTTATTCTGGAACTTCAGCTGGATCAACT
AGTTCGCCAAGTCCAATTACTGTTTCAGTTTCACAAGGTTCTTCCAATCATACATCAATT
TCTCGACCAATTCCTTTAGTGCCAGCATCATGGACGTCTTCACGTCAAACTAAAACACAA
CATCCAATTATTATGCATTCTGTGAAATCGACACAAGTTCAAAAGCCAATTTTACAAACT
GCCGTTGCTCCTCTAGCGCCTTCGTCTTCCTCGTCATCAACTTCTGTCACAACGCCAACT
TCTTTAACACAAGCACCTCCCTCATATGCAACAACATGGCAACAAAAACAAGTTCATACA
CCTCCTCAAACACCACCAATTATAATTGCAAGCTCTGGCAGTAGTACAAAATCTTTAACA
CCACCTTCAACACCAGGTCTTACTGCATCAACATCAACAAATAGTAGCAATAATGGAGGC
ACAAGTGGAAATAATTCACCAACAATTTATAATACTGAACCACCTTCTTATGCAACTACA
ATGATGGTTAGAGCTCAACAACCACCACCATCAACTTCTTCACGAAATCCTCCACCGCCG
CCATATTCAAATCCTTTAAATAGCAATAATAATAATAATTATACTTCATCAAGTTCATCA
GAGATTTTAAATAATAATAATAATAGCAATAGTGTGACAAGTAATAATAATAATAATAAT
AATAATAATAATAACTTATTGACAACTCCACCTTTACCGAAATCAGCAAAAAATATTCAT
AGTAATGCATTACATAAACAAACATCAAATCCTTCAAATAGTAATAATAATAATAACAAT
CTTAATGTAAATGGAAGCAATAATAGTGTTAATAGTGGAAATAGTAATATAACAGATTCA
AATGCAAATGAATTAAATTCTGTAAGAAAAATTAAGCATCAGTCACCAATACCCGAACGA
AAGAATATAAGTAAAGAAAAAGAAGAAGAAAGATTTGAATGTAAAGTTCGTCATTATTCG
CCACAAGCCTATAAATTCTTTATGGAACAACATATTGAAAATGTATTAAAATCACACAAG
CAACGACTTTATCGACGTAATCAACTTGAACGTGAAATGGCAAAAATGAAGATGCCTGAT
GAGACCAAAATTGAAATGAGAAAACTTCTCAATCAAAAAGAATCAAATTACATTCGACTA
AAACGTGCTAAAATGGAAAAGTCAATGTTTCAGAAAATCAAAGCAATTGGTGTAGGCGCA
TTTGGTGAAGTGACATTAGTGCAAAAGATTGATACACCAAATCACTTGTATGCGATGAAG
ACTCTTCGAAAATCAGACGTTCTTAAACGAAATCAAGTTGCGCATGTAAAAGCCGAGAGA
GATATTCTGGCAGAGGCTGATAATGAGTGGGTTGTTAAATTATATTACAGTTTTCAAGAT
AAGGACAATTTGTATTTTGTTATGGACTATATTCCTGGTGGTGACTTAATGTCGTTATTA
ATCAAGAAAGGAATTTTTGAGGAAGAACTTGCTAGATTTTATATTGCTGAACTCACATGT
GCCATCGATAGCGTTCATAAAATGGGTTTTATTCATAGGGATATAAAACCAGATAACATC
TTAATTGATAAGAAAGGTCATATAAAATTAACAGATTTTGGATTATGTACTGGATTTAGA
TGGACACATGATTCAAAATATTATCAAAAGAATGGTGATCACGCTCGACAAGATTCGATG
GAAGCATGGAGTAAAAATGGTATTTCTGATATTCCACCACCATTAGAAAGGAGAAAATTC
CGTGAAAAAAATCGAGCAAAAGCGCATTCAATAGTTGGTACACCAAATTATATCGCACCT
GAAGTTTTACTACGTAGTGGTTATACTCAATTATGTGACTGGTGGAGTGTGGGTGTTATT
CTTTATGAAATGTTGGTAGGACAACCACCATTTTTAGCTAATACAGCAGAAGAAACTCAA
TATAAGGTCATTCATTGGCGACAAACATTGAAAATTCCTCCACAAGCAAAACTATCAAAA
GAAGCTTCTGATATAATTTTAAAACTATGTCGAAACGAGGACGAACGACTTGGAAAGAAA
GTTGAAGATATAAAAAGTCATCCTTTCTTAGAACAAATAGACTGGACAAAGGATCTTAGA
AGTCAACAAGCACCATTTGAACCGAAAATCATTCATGCTATGGACACATCGAATTTTGAT
CCGATTGATGAAAATAAATTAAGAGATAGCACTGATGATTCATTTGGAAATGAATTGATT
GACAGTAGCAAGCCTTTTCATCACGGCTTTTTTGAATTCACATTTAGACGATTTTTTGAT
GATGATTATAAAATTACATTGGATGGCAACGAGAACAATCAGACAAATGCAATCTACGTT
TGA
>g1939.t1 Gene=g1939 Length=1040
MFISEKFLDVHRLKLTNGRPEAIAEFLKQATEQQLLNGHGKAPALAPKLIRKPSIEREIP
SNSLHLPRNSPALDSCTNSVAGSSRSDSPSTANQQHLLANSSRATSVNAPYSPSPCPSHS
SYNEIPPIPPPRSSASSTPSPYQQYFKQRMSPAAPSRVMHQSQNASPVTTTNGNMRQGML
MQGRTPGVQQQQQLQALSLYQNGNSISEPPPPYPIINSHSHTPLAPPSYNASIHSRQSPT
QDYRKSPSSGIYSGTSAGSTSSPSPITVSVSQGSSNHTSISRPIPLVPASWTSSRQTKTQ
HPIIMHSVKSTQVQKPILQTAVAPLAPSSSSSSTSVTTPTSLTQAPPSYATTWQQKQVHT
PPQTPPIIIASSGSSTKSLTPPSTPGLTASTSTNSSNNGGTSGNNSPTIYNTEPPSYATT
MMVRAQQPPPSTSSRNPPPPPYSNPLNSNNNNNYTSSSSSEILNNNNNSNSVTSNNNNNN
NNNNNLLTTPPLPKSAKNIHSNALHKQTSNPSNSNNNNNNLNVNGSNNSVNSGNSNITDS
NANELNSVRKIKHQSPIPERKNISKEKEEERFECKVRHYSPQAYKFFMEQHIENVLKSHK
QRLYRRNQLEREMAKMKMPDETKIEMRKLLNQKESNYIRLKRAKMEKSMFQKIKAIGVGA
FGEVTLVQKIDTPNHLYAMKTLRKSDVLKRNQVAHVKAERDILAEADNEWVVKLYYSFQD
KDNLYFVMDYIPGGDLMSLLIKKGIFEEELARFYIAELTCAIDSVHKMGFIHRDIKPDNI
LIDKKGHIKLTDFGLCTGFRWTHDSKYYQKNGDHARQDSMEAWSKNGISDIPPPLERRKF
REKNRAKAHSIVGTPNYIAPEVLLRSGYTQLCDWWSVGVILYEMLVGQPPFLANTAEETQ
YKVIHWRQTLKIPPQAKLSKEASDIILKLCRNEDERLGKKVEDIKSHPFLEQIDWTKDLR
SQQAPFEPKIIHAMDTSNFDPIDENKLRDSTDDSFGNELIDSSKPFHHGFFEFTFRRFFD
DDYKITLDGNENNQTNAIYV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1939.t1 | CDD | cd05598 | STKc_LATS | 648 | 1009 | 0.0 |
| 6 | g1939.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 650 | 734 | 1.6E-62 |
| 7 | g1939.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 735 | 799 | 1.6E-62 |
| 8 | g1939.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 844 | 969 | 6.3E-39 |
| 5 | g1939.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 970 | 980 | 6.3E-39 |
| 17 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 61 | 95 | - |
| 16 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 63 | 95 | - |
| 19 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 129 | 168 | - |
| 14 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 137 | 168 | - |
| 21 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 230 | 300 | - |
| 18 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 324 | 343 | - |
| 13 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 372 | 409 | - |
| 20 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 547 | 568 | - |
| 15 | g1939.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 553 | 568 | - |
| 2 | g1939.t1 | PANTHER | PTHR24356 | SERINE/THREONINE-PROTEIN KINASE | 334 | 1021 | 1.2E-231 |
| 3 | g1939.t1 | PANTHER | PTHR24356:SF149 | SERINE/THREONINE-PROTEIN KINASE LATS2 | 334 | 1021 | 1.2E-231 |
| 1 | g1939.t1 | Pfam | PF00069 | Protein kinase domain | 650 | 950 | 1.2E-61 |
| 11 | g1939.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 656 | 680 | - |
| 10 | g1939.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 770 | 782 | - |
| 23 | g1939.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 650 | 950 | 45.813 |
| 22 | g1939.t1 | ProSiteProfiles | PS51285 | AGC-kinase C-terminal domain profile. | 951 | 1025 | 10.082 |
| 12 | g1939.t1 | SMART | SM00220 | serkin_6 | 650 | 950 | 2.1E-94 |
| 4 | g1939.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 635 | 985 | 7.28E-80 |
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:0005524 | ATP binding | MF |
| GO:0004674 | protein serine/threonine kinase activity | MF |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K08791 (serine/threonine-protein kinase LATS1/2)
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.
