General information for g13549.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein kinase MARK2.
Parent gene
- The parent gene g13549 is located on chr_1: 30806893..30808849 (+ 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 | g13549 | g13549.t1 | isoform | g13549.t1 | 30806305 | 30808849 |
| chr_1 | g13549 | g13549.t1 | exon | g13549.t1.exon1 | 30806305 | 30806893 |
| chr_1 | g13549 | g13549.t1 | cds | g13549.t1.CDS1 | 30806305 | 30806893 |
| chr_1 | g13549 | g13549.t1 | exon | g13549.t1.exon2 | 30807120 | 30807147 |
| chr_1 | g13549 | g13549.t1 | cds | g13549.t1.CDS2 | 30807120 | 30807147 |
| chr_1 | g13549 | g13549.t1 | exon | g13549.t1.exon3 | 30807220 | 30807281 |
| chr_1 | g13549 | g13549.t1 | cds | g13549.t1.CDS3 | 30807220 | 30807281 |
| chr_1 | g13549 | g13549.t1 | exon | g13549.t1.exon4 | 30807483 | 30807602 |
| chr_1 | g13549 | g13549.t1 | cds | g13549.t1.CDS4 | 30807483 | 30807602 |
| chr_1 | g13549 | g13549.t1 | exon | g13549.t1.exon5 | 30807750 | 30808849 |
| chr_1 | g13549 | g13549.t1 | cds | g13549.t1.CDS5 | 30807750 | 30808849 |
| chr_1 | g13549 | g13549.t1 | TSS | g13549.t1 | NA | NA |
| chr_1 | g13549 | g13549.t1 | TTS | g13549.t1 | NA | NA |
Sequences
>g13549.t1 Gene=g13549 Length=1899
ATGGAGCAAATTAAACAACCGAGTATATCAATAATGGATTCTGCAAATCGACATGTTGAA
AGAAAACCAGCGACTATAGATGTGGCACAGAAAATTCAAAAAAAATCTACTTCAATGCGA
GAACAACAAATCGGAAAGTATAGATTACTAAAAACAATTGGAAAGGGCAATTTTGCTCGA
GTTATGCTCGCAAGACATATATTAACAAGCAATGAAGTGGCCATCAAGATAATAGATAAG
ACACAGCTGAATCCAAACTCACTGGAAAAACTTTTTCGCGAAGTCGCAATAATGAAATTG
CTTCAGCATCCGAATATAGTAAAATTATATGAAGTAATCGAGACTGATAAGACTCTGTAT
CTCGTAATGGAATATGTGAATAATGGTGAAGTGTTCGAATATCTTGTAAAGAATGGACGA
ATGAAGGAGAATATAGCACGCCAGAAATTCAGACAAATTGTATCAGCAGTTCAATATCTA
CACAGTAAAAAAATTATTCATCGTGATTTAAAAGCTGAAAATCTTTTGCTCGATCAAAAT
TTAGATGTCAAAATCGTTGACTTTGGATTCTCGAATATGTACGCAGAAGGTAATAAAATG
GATACATATTGTGGATCACCTCCTTATGCTGCGCCAGAATTGTTTCAAGGAAAGAAATAC
GATGGGCCAGAGGTTGATGTTTGGTCATTGGGCGTAATTCTTTATACTCTTGTAAGCGGC
TCTCTTCCATTTGATGGCAGTACTTTACGAGAATTGCGAGAACGTGTCATTCGCGGGAAA
TATAGAATTCCATTTTATTTATCAACTGATTGTGAAGCTCTCTTGAAAAAATTCTTAGCA
TTGAATCCGTTAAAACGATACCCATTAGAGCAAATTATGAAGGACAAATGGATGAATTTA
AATGAGGAAGAATTAAAGCCATATGTTGAGCCAACTGTTGAAATGAATGATCCTAAAATA
ATTGAGCATCTCATGACACTTGGCTATAAACTCGGTGACATTGAAAAATCGTTAGCTAAT
CGACGATTTGACGAGATTTACGGTACATATGCGTTATTACAAAATAGTAGTAGTAGAAAG
TTAAGTCGATCAAAGCCAGAGAGTATGACTAGTATTGCAAGTGCAGCCACATCTATTGTT
GCGCCATCATCTTCAACCACAATGCCATCGACAAATTCGGTGCCATCATCAACAACTGCC
ACAAATAGTAATAATAATAATAATCATCATCATCAAAAGAGTGAAACGACAACGAATGGA
GATGGACTTAAAGAGACTTCGTTTATGACAATTCACGAAGATTCTACAAAAAATACCCTT
ATATCAAATGACCCACCTTCGCCAGAACTGACAAATCTTAAGCGACAACATACAATCGGA
CCAGAATCTTTAAAAGAGCGAAATGCCATTCGTTTTCATACAACATCTGGTGTAGGAAGT
GGAGCATCGAGGCCAATTTCAGCTACTCCAAAAGTTGCTGGTGAAAGGTCGCAACAGAAG
AGTCCTGTTAAACCTCTTCGCGCATTCAAACCAGAAACGTCACTAAGCACAACCGCACAA
ACACCGCGTCGTCCAAATGTTAATGTGTACAAAAAAGTTGATAATACTAAGGATACAACA
AACCTATTGACTCCAGGATCTGCTATTGGAAACTCATCGAGCTCAACCTCGAGTAATGCA
TTTACTAGAAACGGACCATCACGATATACATTTCATTCCGGACAGTCGCGAATGACGACA
AGAGAACATAACACACTCGGATCAAAAACCGACCCACCTTCTTTTGGAGGAAAAGGGAAT
TTCCTACAACGTTTAACTACGCGCTTCTCAAAACGTTTCCGATTAAACGGAAAACATCCT
GCCACGAGTACCACCGAAAGCTCAAATAATAGCAAATAG
>g13549.t1 Gene=g13549 Length=632
MEQIKQPSISIMDSANRHVERKPATIDVAQKIQKKSTSMREQQIGKYRLLKTIGKGNFAR
VMLARHILTSNEVAIKIIDKTQLNPNSLEKLFREVAIMKLLQHPNIVKLYEVIETDKTLY
LVMEYVNNGEVFEYLVKNGRMKENIARQKFRQIVSAVQYLHSKKIIHRDLKAENLLLDQN
LDVKIVDFGFSNMYAEGNKMDTYCGSPPYAAPELFQGKKYDGPEVDVWSLGVILYTLVSG
SLPFDGSTLRELRERVIRGKYRIPFYLSTDCEALLKKFLALNPLKRYPLEQIMKDKWMNL
NEEELKPYVEPTVEMNDPKIIEHLMTLGYKLGDIEKSLANRRFDEIYGTYALLQNSSSRK
LSRSKPESMTSIASAATSIVAPSSSTTMPSTNSVPSSTTATNSNNNNNHHHQKSETTTNG
DGLKETSFMTIHEDSTKNTLISNDPPSPELTNLKRQHTIGPESLKERNAIRFHTTSGVGS
GASRPISATPKVAGERSQQKSPVKPLRAFKPETSLSTTAQTPRRPNVNVYKKVDNTKDTT
NLLTPGSAIGNSSSSTSSNAFTRNGPSRYTFHSGQSRMTTREHNTLGSKTDPPSFGGKGN
FLQRLTTRFSKRFRLNGKHPATSTTESSNNSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13549.t1 | CDD | cd14337 | UBA_MARK_Par1 | 316 | 354 | 2.81823E-12 |
| 6 | g13549.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 31 | 127 | 1.5E-36 |
| 7 | g13549.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 128 | 311 | 4.1E-64 |
| 5 | g13549.t1 | Gene3D | G3DSA:1.10.8.10 | DNA helicase RuvA subunit | 312 | 355 | 5.7E-13 |
| 13 | g13549.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 377 | 421 | - |
| 15 | g13549.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 460 | 524 | - |
| 12 | g13549.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 573 | 591 | - |
| 14 | g13549.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 573 | 597 | - |
| 16 | g13549.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 612 | 632 | - |
| 17 | g13549.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 617 | 632 | - |
| 2 | g13549.t1 | PANTHER | PTHR24346 | MAP/MICROTUBULE AFFINITY-REGULATING KINASE | 15 | 602 | 3.2E-197 |
| 3 | g13549.t1 | PANTHER | PTHR24346:SF56 | SERINE/THREONINE-PROTEIN KINASE MARK2 | 15 | 602 | 3.2E-197 |
| 1 | g13549.t1 | Pfam | PF00069 | Protein kinase domain | 47 | 298 | 3.9E-75 |
| 10 | g13549.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 53 | 76 | - |
| 9 | g13549.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 165 | 177 | - |
| 18 | g13549.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 47 | 298 | 52.965 |
| 11 | g13549.t1 | SMART | SM00220 | serkin_6 | 47 | 298 | 1.2E-103 |
| 4 | g13549.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 44 | 299 | 1.62E-95 |
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:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K19852 (serine/threonine protein kinase KIN1/2)
Pathway
This gene does not belong to any 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.
