General information for g11789.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein kinase SIK2.
Parent gene
- The parent gene g11789 is located on chr_1: 18428719..18440855 (- 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 | g11789 | g11789.t1 | isoform | g11789.t1 | 18428719 | 18440855 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon1 | 18428719 | 18428814 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS1 | 18428719 | 18428814 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon2 | 18429314 | 18430464 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS2 | 18429314 | 18430464 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon3 | 18430527 | 18430790 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS3 | 18430527 | 18430790 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon4 | 18430846 | 18431284 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS4 | 18430846 | 18431284 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon5 | 18432516 | 18432806 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS5 | 18432516 | 18432806 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon6 | 18432877 | 18433366 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS6 | 18432877 | 18433366 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon7 | 18433440 | 18433645 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS7 | 18433440 | 18433645 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon8 | 18433714 | 18433934 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS8 | 18433714 | 18433934 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon9 | 18434053 | 18434176 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS9 | 18434053 | 18434176 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon10 | 18434235 | 18434300 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS10 | 18434235 | 18434300 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon11 | 18434363 | 18434467 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS11 | 18434363 | 18434467 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon12 | 18434530 | 18434645 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS12 | 18434530 | 18434645 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon13 | 18434848 | 18434911 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS13 | 18434848 | 18434911 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon14 | 18436312 | 18436428 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS14 | 18436312 | 18436428 |
| chr_1 | g11789 | g11789.t1 | exon | g11789.t1.exon15 | 18440499 | 18440855 |
| chr_1 | g11789 | g11789.t1 | cds | g11789.t1.CDS15 | 18440499 | 18440855 |
| chr_1 | g11789 | g11789.t1 | TSS | g11789.t1 | NA | NA |
| chr_1 | g11789 | g11789.t1 | TTS | g11789.t1 | NA | NA |
Sequences
>g11789.t1 Gene=g11789 Length=4107
ATGGGAGAACGCGATATGATAATTACTAATGTGCAAAACGCGACTAATGGTCTCCCATCG
ATTTCACGTAATTTAACACCTCCACCATCTGGAGCATCTTCATCACCCTCACCGGTACCA
AATCAATCAGCCTCATCGAATGGATCTGGTAATGACTCACTTAAAGCCAATGGTCAACAA
TCGATGACGTCTCCTATTAATACGAATAACATCACAGGTGGTAATAATTCATCAACAGCA
GCAGCAACAAAGAGCAAAGTGCCAATTCGTGTTGGCTTTTATGAAATAGAAAAAACGATT
GGTAAAGGAAATTTTGCTGTTGTGAAATTAGCACGTCATCGTGTAACAAAGAATGAGGTT
GCAATTAAAATTATCGACAAAACACAACTAGATGCCGGTAATCTACAGAAAGTTTATCGA
GAAGTTGACATAATGAAACGATTGGATCATCCACACATAATTAAACTGTATCAGGTGATG
GAGAGTCAGAGTATGATCTACATTGTCAGTGAATATGCTAGTCAAGGAGAAATTTTCGAT
TATATTGCAAAGTATGGTAGACTGAACGAACGTGCCGCTAGGCATAAATTTTGGCAAATT
TTATCTGCAGTGGAATATTGTCATTCGCAAAATATAGTACATAGGGATTTAAAGGCTGAG
AATCTTTTATTAGATTCAAATATGAATATTAAGATTGCCGATTTCGGATTTTCAAATTTT
TACACTCCAGGCGAATTACTCAGCACTTGGTGTGGATCGCCGCCGTATGCAGCTCCTGAA
GTATTTGAGGGAAAGAAATATACAGGTCCAGAAATTGATATTTGGTCACTTGGAGTTGTT
TTGTATGTTCTCGTTTGTGGTGCACTGCCGTTTGATGGTTCAACTTTACAATCATTGCGT
GATCGAGTTTTATCAGGAAGATTTCGTATACCATTTTTTATGAGTTCTGATTGTGAATCG
CTTATTAGAAAAATGTTAGTGCTTGATCCGAATCGACGAGTGACAGTAGAACAAATTAAA
CGTCATCGATGGATGATGGTTGAAGTTATGGAAATACCATTGGTTAATAATAATATGTCA
AATGCAACGACATCGGAACCAAATGATCAAATTCTTAGAATTATGCAAAACTTAGGCATT
GATGCACAACGAACAAGAGAAAGTTTAAAGTCAAACAGCTATGACCATTATCAAGCTTTT
TATTTACTATTGTTAGAACGATTGAAAAATCGTTCAATGTCTCAGGAAAATGCTGTTAAT
GGAACTGGACAAAATAATAGTACACCAAAACATCCTTCTCTCGATTCTCAAAGGCGCAGA
CCCAGTTCGATTGCTGAACAAGCAATGAGAAAACTTGGACTAGGTACACATCAAAGATCC
GAACCACCCATATCACCACGACATCATGCTTCAATTACATCAAATAATCGAAGTTCAGAA
ACTATAGCAAACATTATGCAAACACCAATCCCATCAATGATTTTGCGTGATACTAGTATA
AGAGAGCAATCTTCATCATCAAACAAGGATAGTCAAACGTCATCATATTTTCGCGGATCT
TCATATAATAACAATATTAGCAATAGCAACAATTCTGGTTATAATTCATCAACATTTTCT
TCACGTGAGCGTGATTGCAGCTCACCATTCTTAAATAGTAGTGGGTCAAATAGCATTTCA
TCACATAATAACAGCAACCAACTTTTAATAAGCTCAAGGGAAAACAATTCGATTATTTTA
AGGGAAAATAGCGCAATTCAACAACATAATTCACGCGTTGCTTCAAATCGATTTCTTTCA
AGTGGTTTTGATACACAACGTATTATAAAACAAAGCACAGAAGATTGTCGTCGATTGCTT
CAACAAGCAACAGCAGTAGTAGATACAAGTCGAAGTCAACCACCACAAGTGCAGATTCCA
ATATTAGAACAACCAAATTCTCTTTATTCTGGTCATTTTTCTTATCATACATCACCCCAG
TCATCTCCAAGTGGACAATGTAATCAAGCATCATATCATCATCGTGTATTAACATCATCA
AATAGTTTCGATTCGAAATCTCAAATACCCAGTTTCTCATCTTATCATATGTCAGCCGAA
GCAGCAAAATTATTTGCAACACTTCAACAGAGTCCATTGCCATTACCACAAAACGATAAT
ACTCCAACAACATCACATTCATCTATTCTACGACCATCACATGATGCATCGCTACGATAT
ACGAACACTACAAATATAAATGCAACACAACAGTATGCACAACAAATTCCATTATCAACA
ACTGATATTCAACTAGCATCCCAGCAGCAGTCTACTACAACTATCACTCCACTCAAACAA
TCATCTTGTACAAACCAGACGCAAAGACATTCTGATCCATTGGGTGGATCTAATAAAGAT
AAAATGTTGAATTTTGGTGATTTAGCGAAAGCAACACCACCCTTTAAGGATTTTTTTAAC
AATTTACACACTTATCAATATTTACAACAATTGGAGCAAACGTCTGCAGATTCTATGCAA
CCAAGGCATTCACAAATTACACAACAATATAGTTCCAGTACAGATGAAGGTTGTTGTGAC
ACAGACGATCATGGTGAAATGGATGATACATCAACACCAACAACAATTACTTCAAATATA
CAACGATTAAATTCATATGCATCATCAAGTTCATCAAGTGGTGTTGTAACCAATTTTCCA
TCAAAAAGTCTTAGTCAAAATCTCAGTTGTGATTCATCACGCAGTAATTTCTCAACATTT
GAATCTCTTGATTTGAATTTATCAGATTGCAGTGATTTAGCTAGTAGTCTTCCCTCATGT
GCAAGCGCAAATGTTACTGAATGTGAAAACAGAGAAGATGATAATTTATCTCGAGCTGTA
ACTTCATCTTCGACTATTCATCATCCATGCATTTATGTTTCTATGTCAGGTAAATCGCCA
TGTTCATTTTTTCGAAACAATCCAATGGGACACTTTCAACAAAAAGGTGGGACATGTCGT
GCGGTTACACGCTCACCTGTTGATTTCCGTGAAGGTCGTCGAGCAAGTGATGGTCTAGTA
GCACAGGGTATTTTAAGTCAAGTAGACAATTCGATTAATTCAGTAGCATTTAACAGCCAA
CGATTACATGAAGCATGCAAAGCAAAAGGTGTTCTTGAATTACATTTACTTCAACAAGAA
GCCGCACAATTATCATCACAATATCAAAGTATACCACCTGATGAGATGAATGTACGTCAA
ATGCAACATAGTCAATTTCAATGTAATACCAATATAACACCGCCAATAAAATTGACGAGT
GATTTAAATACAGTCAATGGCGTGGGATTATCAAATGGTTATAAAAATCAAGAAACCTCT
TATTTTAATAAAACAGTCAGTGGTATCACTTCTGATATAAATACATATGTTGGTATGATG
AAAACTTGTGATTTAACAAAGCATGAAAATAGTGATTTGAATACCATTAAACACATAACA
ATCAAATCGGACTCACAGCAGGCAATTTCATCACCACCTTCGTCTTTACAAAAGCCACCT
TTACAACAACAACTCATGCAGCATCGGTTATTGCAACAAAAGAGACAAATTTTGCAAAAG
CAAGGTGCGATGGAAACTGGTCTAAATGGATTAAGTCGTAGACAAATGTTGCGACAACAA
AGTTATAAAATTGCACAAACTCAACAAGTTTTGCCACCGTTACCATATCCTCTAAGTGAA
AGTGAGTCAGAAGATTTGCTTGCGTTTCAACAAATAGTTGAAAATCCTTCTTCATGCTCT
TCGTCATTACACATAAATTCACCAAAATTGCTTAAGACTACACACTTGCATGGCACAAAT
AATCAATCATCTTCCTTATCACCATCACTTTCTCCACAACAAACGAATTTGTCAAATGAT
GCCACTGGCATATGGAATAACCTTTCAAATAATTTACAAAGTTCTTGTCAAATTAGTGAA
GCATCAACTGCCAACGCGCATGATATCTTTCATCAACCACTTTATCATCAGAGTTCTTCT
TCATTATATCCCAATTGGAATTCATCACAAGCACATTCTTCGATTTCGCCACCGCCCATA
CTCGAGGAACAAATGGAGTCAATTTAG
>g11789.t1 Gene=g11789 Length=1368
MGERDMIITNVQNATNGLPSISRNLTPPPSGASSSPSPVPNQSASSNGSGNDSLKANGQQ
SMTSPINTNNITGGNNSSTAAATKSKVPIRVGFYEIEKTIGKGNFAVVKLARHRVTKNEV
AIKIIDKTQLDAGNLQKVYREVDIMKRLDHPHIIKLYQVMESQSMIYIVSEYASQGEIFD
YIAKYGRLNERAARHKFWQILSAVEYCHSQNIVHRDLKAENLLLDSNMNIKIADFGFSNF
YTPGELLSTWCGSPPYAAPEVFEGKKYTGPEIDIWSLGVVLYVLVCGALPFDGSTLQSLR
DRVLSGRFRIPFFMSSDCESLIRKMLVLDPNRRVTVEQIKRHRWMMVEVMEIPLVNNNMS
NATTSEPNDQILRIMQNLGIDAQRTRESLKSNSYDHYQAFYLLLLERLKNRSMSQENAVN
GTGQNNSTPKHPSLDSQRRRPSSIAEQAMRKLGLGTHQRSEPPISPRHHASITSNNRSSE
TIANIMQTPIPSMILRDTSIREQSSSSNKDSQTSSYFRGSSYNNNISNSNNSGYNSSTFS
SRERDCSSPFLNSSGSNSISSHNNSNQLLISSRENNSIILRENSAIQQHNSRVASNRFLS
SGFDTQRIIKQSTEDCRRLLQQATAVVDTSRSQPPQVQIPILEQPNSLYSGHFSYHTSPQ
SSPSGQCNQASYHHRVLTSSNSFDSKSQIPSFSSYHMSAEAAKLFATLQQSPLPLPQNDN
TPTTSHSSILRPSHDASLRYTNTTNINATQQYAQQIPLSTTDIQLASQQQSTTTITPLKQ
SSCTNQTQRHSDPLGGSNKDKMLNFGDLAKATPPFKDFFNNLHTYQYLQQLEQTSADSMQ
PRHSQITQQYSSSTDEGCCDTDDHGEMDDTSTPTTITSNIQRLNSYASSSSSSGVVTNFP
SKSLSQNLSCDSSRSNFSTFESLDLNLSDCSDLASSLPSCASANVTECENREDDNLSRAV
TSSSTIHHPCIYVSMSGKSPCSFFRNNPMGHFQQKGGTCRAVTRSPVDFREGRRASDGLV
AQGILSQVDNSINSVAFNSQRLHEACKAKGVLELHLLQQEAAQLSSQYQSIPPDEMNVRQ
MQHSQFQCNTNITPPIKLTSDLNTVNGVGLSNGYKNQETSYFNKTVSGITSDINTYVGMM
KTCDLTKHENSDLNTIKHITIKSDSQQAISSPPSSLQKPPLQQQLMQHRLLQQKRQILQK
QGAMETGLNGLSRRQMLRQQSYKIAQTQQVLPPLPYPLSESESEDLLAFQQIVENPSSCS
SSLHINSPKLLKTTHLHGTNNQSSSLSPSLSPQQTNLSNDATGIWNNLSNNLQSSCQISE
ASTANAHDIFHQPLYHQSSSSLYPNWNSSQAHSSISPPPILEEQMESI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11789.t1 | CDD | cd14071 | STKc_SIK | 93 | 345 | 0.0 |
| 7 | g11789.t1 | CDD | cd14338 | UBA_SIK | 368 | 411 | 9.36891E-16 |
| 6 | g11789.t1 | Coils | Coil | Coil | 1181 | 1201 | - |
| 5 | g11789.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 87 | 429 | 1.9E-115 |
| 13 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 57 | - |
| 16 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 8 | 57 | - |
| 14 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 414 | 443 | - |
| 15 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 414 | 479 | - |
| 12 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 772 | 793 | - |
| 17 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 772 | 796 | - |
| 18 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 835 | 856 | - |
| 19 | g11789.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 835 | 858 | - |
| 2 | g11789.t1 | PANTHER | PTHR24343:SF299 | FI24002P1 | 90 | 1290 | 2.7E-209 |
| 3 | g11789.t1 | PANTHER | PTHR24343 | SERINE/THREONINE KINASE | 90 | 1290 | 2.7E-209 |
| 1 | g11789.t1 | Pfam | PF00069 | Protein kinase domain | 94 | 345 | 4.9E-75 |
| 11 | g11789.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 100 | 123 | - |
| 10 | g11789.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 212 | 224 | - |
| 20 | g11789.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 94 | 345 | 50.887 |
| 9 | g11789.t1 | SMART | SM00220 | serkin_6 | 94 | 345 | 8.8E-106 |
| 4 | g11789.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 91 | 346 | 9.44E-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: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 K16311 (serine/threonine-protein kinase SIK2)
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.
