General information for g10412.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein kinase shaggy.
Parent gene
- The parent gene g10412 is located on chr_1: 9630341..9632561 (+ 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 | g10412 | g10412.t1 | TSS | g10412.t1 | 9621706 | 9621706 |
| chr_1 | g10412 | g10412.t1 | isoform | g10412.t1 | 9622605 | 9632201 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon1 | 9622605 | 9623460 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS1 | 9622605 | 9623460 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon2 | 9628794 | 9628984 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS2 | 9628794 | 9628984 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon3 | 9629048 | 9629131 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS3 | 9629048 | 9629131 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon4 | 9629850 | 9629960 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS4 | 9629850 | 9629960 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon5 | 9630025 | 9630262 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS5 | 9630025 | 9630262 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon6 | 9630340 | 9630533 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS6 | 9630340 | 9630533 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon7 | 9631747 | 9631933 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS7 | 9631747 | 9631933 |
| chr_1 | g10412 | g10412.t1 | exon | g10412.t1.exon8 | 9631999 | 9632201 |
| chr_1 | g10412 | g10412.t1 | cds | g10412.t1.CDS8 | 9631999 | 9632201 |
| chr_1 | g10412 | g10412.t1 | TTS | g10412.t1 | 9632304 | 9632304 |
Sequences
>g10412.t1 Gene=g10412 Length=2064
ATGCGAGAACTTAATGAAATTCAAACATTCATTGAAGAAAATTTTCATGATGTAAATGAA
GAAATGGCTGAAGTTCAAAATTCATCATCAGAATTTTCACATTTAACAGATAATAGCGAA
AAATGTGTAGTTACAAATGAATCTGATTCGGGAATTATTTACGATCAAATGGATGAAGAA
AAAGATAGAAGTGAACTCAGTATTAATACAAATATAAGTAATGATAAGAATTTATTGACA
GCGCATAATAAATATGTTCTCACTGACAGTGGCATCGATAGTATTTCTAAAATTCCTTCA
TTGCATGATGATTTTCATTCAAAACAGAGTCTTACAAAATGCTCATTGAAATCGTCCTCA
GTCTCAACGATGGCAATGCCGTTACGTGAATCATCTCAACCACATACGACCTCAAAAATG
CGCAGCAAACGATATAGTTTGCCAGATATCGACAAATTGAAAACATACAACGAATGTACC
AAAAAGTCAGCAATCAACCGTAAAACTATGATATGTGATACGAAACAAGAAACCAATAAC
CCGATTCTTCCCTTAGTGCCTCATAAAGATGCTAAACAATCATTACCGAAGCAGCCTCAA
GCTGAAAAATTTGATAATTTTGCAATCGATCCAAAGCTTATTAATAAATATGATGGACTT
TCACAGTCACTGTATTACATCGATGAAAATGGTAGTCCAAAAATTCGTGAACGTTACATT
AAACAACAACGTATGCTTATAGAAAAGCAGGAGCAAAGAAAGCGTGAAAAAGCAGCTCGA
AAGAGCTTGGAATCTGAAAAAGCGACATGTTCATGCTTCAATTTTAGTCGATTATCGAAG
AAACTCAAAGAATTATGTAAAGATGGTTCAAAAGTGACGACAGTGGTCGCAACGCCTGGT
CAAGGACCAGATAGACCTCAAGAAGTTTCCTACTCGGACACCAAAGTCATTGGAAATGGG
AGTTTCGGTGTTGTTTTTCAAGCCAAACTTTGTGACACCGGCGAATTAGTTGCCATTAAA
AAAGTTTTACAGGACAAGAGATTCAAGAATCGTGAATTACAAATTATGAGACGATTGGAG
CACTGTAATATCGTAAAGTTAAAGTACTTTTTCTACTCAAGTGGTGAAAAGAAGGACGAA
GTCTATTTAAATTTAGTGCTCGAATATATTCCAGAGACCGTCTATAAAGTAGCACGCCAA
TATGCAAAAAATAAACAAACGATACCAATTAACTTTATCAGACTTTATATGTACCAATTG
TTCAGAAGTCTCGCATACATACACTCGTTGGGCATTTGTCATCGCGATATAAAACCTCAA
AATTTGTTGTTGGATCCCGAAACGGCTGTGTTAAAATTATGTGACTTTGGTAGCGCAAAA
CAATTGCTGCAAGGTGAACCAAATGTTTCATATATATGCTCGCGATATTATCGCGCGCCT
GAACTCATTTTCGGTGCAATTAATTACACGACAAAAATTGATGTTTGGAGTGCAGGTTGC
GTGTTAGCAGAACTTCTCCTCGGTCAACCAATTTTCCCGGGTGATTCAGGCGTTGATCAG
TTGGTTGAAATCATAAAAGTATTGGGTACACCAACGAGGGATCAAATAAAAGAAATGAAT
CCTAATTACACTGAATTTAAATTCCCGCAAATTAAAAGTCACCCATGGCAAAAGGTGTTC
AGAGTACGTACACCTCCTGAGGCAATCGCATTAGTGTCACGTTTATTGGAATATACACCC
GGTGCAAGAATAACACCGCTACAAGCTTGTGCACATCCATTTTTCAATGAACTTCGAGAG
GGCAACAAAGTTTTACCAAACGGTCGTGAATTTCCACCTTTGTTTAACTTCACTGAGCAA
GAATTAGCAATACAACCATCACTGAATGCAAGTTTGAGCCCACGCAATCCAAATGATGCT
CCAGTCGGTGGACAATCATCATCAAGTGGTGAGCAACAACAGCAACCAACGCAACCAACT
GATACGGTTGCAACTGCAGCTGCCGACTCAACTGTAAAATCAGATGCGCAAGCCACTCAA
GTCTCAGCATCGTCAATGGGTTAG
>g10412.t1 Gene=g10412 Length=687
MRELNEIQTFIEENFHDVNEEMAEVQNSSSEFSHLTDNSEKCVVTNESDSGIIYDQMDEE
KDRSELSINTNISNDKNLLTAHNKYVLTDSGIDSISKIPSLHDDFHSKQSLTKCSLKSSS
VSTMAMPLRESSQPHTTSKMRSKRYSLPDIDKLKTYNECTKKSAINRKTMICDTKQETNN
PILPLVPHKDAKQSLPKQPQAEKFDNFAIDPKLINKYDGLSQSLYYIDENGSPKIRERYI
KQQRMLIEKQEQRKREKAARKSLESEKATCSCFNFSRLSKKLKELCKDGSKVTTVVATPG
QGPDRPQEVSYSDTKVIGNGSFGVVFQAKLCDTGELVAIKKVLQDKRFKNRELQIMRRLE
HCNIVKLKYFFYSSGEKKDEVYLNLVLEYIPETVYKVARQYAKNKQTIPINFIRLYMYQL
FRSLAYIHSLGICHRDIKPQNLLLDPETAVLKLCDFGSAKQLLQGEPNVSYICSRYYRAP
ELIFGAINYTTKIDVWSAGCVLAELLLGQPIFPGDSGVDQLVEIIKVLGTPTRDQIKEMN
PNYTEFKFPQIKSHPWQKVFRVRTPPEAIALVSRLLEYTPGARITPLQACAHPFFNELRE
GNKVLPNGREFPPLFNFTEQELAIQPSLNASLSPRNPNDAPVGGQSSSSGEQQQQPTQPT
DTVATAAADSTVKSDAQATQVSASSMG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10412.t1 | CDD | cd14137 | STKc_GSK3 | 306 | 598 | 0.0 |
| 7 | g10412.t1 | Coils | Coil | Coil | 240 | 266 | - |
| 5 | g10412.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 295 | 391 | 7.8E-42 |
| 6 | g10412.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 392 | 637 | 4.7E-80 |
| 12 | g10412.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 122 | 143 | - |
| 14 | g10412.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 122 | 141 | - |
| 13 | g10412.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 631 | 687 | - |
| 2 | g10412.t1 | PANTHER | PTHR24057 | GLYCOGEN SYNTHASE KINASE-3 ALPHA | 261 | 640 | 1.2E-228 |
| 3 | g10412.t1 | PANTHER | PTHR24057:SF14 | GLYCOGEN SYNTHASE KINASE-3 ALPHA | 261 | 640 | 1.2E-228 |
| 1 | g10412.t1 | Pfam | PF00069 | Protein kinase domain | 311 | 595 | 5.5E-68 |
| 11 | g10412.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 317 | 341 | - |
| 10 | g10412.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 432 | 444 | - |
| 15 | g10412.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 311 | 595 | 43.99 |
| 9 | g10412.t1 | SMART | SM00220 | serkin_6 | 311 | 595 | 2.1E-88 |
| 4 | g10412.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 310 | 633 | 2.53E-89 |
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 K03083 (glycogen synthase kinase 3 beta)
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.
