General information for g6583.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as STE20-like serine/threonine-protein kinase.
Parent gene
- The parent gene g6583 is located on chr_2: 17711197..17713736 (+ 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 | g6583 | g6583.t1 | isoform | g6583.t1 | 17710049 | 17712948 |
| chr_2 | g6583 | g6583.t1 | exon | g6583.t1.exon1 | 17710049 | 17710684 |
| chr_2 | g6583 | g6583.t1 | cds | g6583.t1.CDS1 | 17710049 | 17710684 |
| chr_2 | g6583 | g6583.t1 | exon | g6583.t1.exon2 | 17710741 | 17710986 |
| chr_2 | g6583 | g6583.t1 | cds | g6583.t1.CDS2 | 17710741 | 17710986 |
| chr_2 | g6583 | g6583.t1 | exon | g6583.t1.exon3 | 17711045 | 17711199 |
| chr_2 | g6583 | g6583.t1 | cds | g6583.t1.CDS3 | 17711045 | 17711199 |
| chr_2 | g6583 | g6583.t1 | exon | g6583.t1.exon4 | 17711262 | 17711430 |
| chr_2 | g6583 | g6583.t1 | cds | g6583.t1.CDS4 | 17711262 | 17711430 |
| chr_2 | g6583 | g6583.t1 | exon | g6583.t1.exon5 | 17711498 | 17711604 |
| chr_2 | g6583 | g6583.t1 | cds | g6583.t1.CDS5 | 17711498 | 17711604 |
| chr_2 | g6583 | g6583.t1 | exon | g6583.t1.exon6 | 17711659 | 17711791 |
| chr_2 | g6583 | g6583.t1 | cds | g6583.t1.CDS6 | 17711659 | 17711791 |
| chr_2 | g6583 | g6583.t1 | exon | g6583.t1.exon7 | 17712097 | 17712948 |
| chr_2 | g6583 | g6583.t1 | cds | g6583.t1.CDS7 | 17712097 | 17712948 |
| chr_2 | g6583 | g6583.t1 | TTS | g6583.t1 | 17713778 | 17713778 |
| chr_2 | g6583 | g6583.t1 | TSS | g6583.t1 | NA | NA |
Sequences
>g6583.t1 Gene=g6583 Length=2298
ATGCATATTAATGTTAGAAATAATACATCAAACAAAAATCATCAACATCATTTGCAAGAT
AAAAGTGATGTAGAAAGTATTATCTCTACAACAGCTAGTCATGATAGTCGTGAGCCAGAT
GATGGAATGGAAGGAGTTCAATTGAGGAATAAAGAACCTCAAGATATCATTGTATCATCA
TCAACATCACCAAAAGCACCACCAACACGGACAAAAGAGGAAATACAAATTGCCAATTTA
AAGAAAAAAACACGCAAACGTACGAGGAAATTTGAAATTGATGGTGTACAAGTAACGACT
ACAACTAGTAAGGTTATTTATGGTGATGAAGAAAATGGACGTTTATATGATGATCACATC
TTCCGTAAACAAGAATTAAGAGAACTAAAACTGTTACAAAAACAAGAGAAGAAACAATTT
TATGAATTACAAGCGAAAGAACAAATAGCAAAGGATCAACAAGATAAAAAATTTGAGCAA
GAGCGCCTTGCACTTGAACGTACATATGAAGCTGATATGGATGTATTAGCGCGACAACAT
AAGCAAACTGTAGAAAAATATGAACAGCAGCAAGAAAATGAACTCAGGAATACTTCGAAA
AAAATTAGAATGGAACAAGAAAGGGAATTGAAACTGTTCCGTGATGCTTTAAAACAAGAA
CTGAGGCTGCTTAAACAAGAAATAGATTTATTGCCAAAAGATAAACGTAAAGATGAATTC
CGAAAGAGGAAAACCAGCATGGAGGTGGAACATGAAGAGCGTGAAAAACAATTTTTAGCC
AACCTTTCTGAGCAGCATGAAATAGCTTTGAGAAGAATAAGTGAAATTTATCGTGAAAAA
ATGGCAGCAACAGAAAAAAGTTATTTGCAACAAAAACAAACGGCAATGAGAACTCGTGAA
GCAATGCTTTGGGAGTTAGAAGAAAAACATATACACGAAAAGCATCAACTGTCTAAGAGA
CATGTCAAAGAATTATGCTTTATGCAACGCCATCAAATGATCATAAGGCATGAAAAAGAG
CTTGATCAAATCAAAAAAATGCTTCAAAGAAAAGAAGAAGAACTAATAAAACGCCAAACT
ATTGAGAAACGTGCTCTTCCAAAGAGAATTCGAGCTGAACGAAAAGCTCGTGATATGATG
TTCAGAGAATCATTAAGAATTTCTGTCCATCATGATCCTAAAGCTGAGGAAGAAAAAATT
AAAAAGTTTCAAGAGCAAGAAAAGAAACGATATATGCAAGAACAACAAAGATTTGAAACA
AAACACATTAAGCAATTAGAGGAACTTCGTGCAAATTGTGATTCAACTATAAGGGAACTC
GAGCAAATGCAAAATGAAAAACGAAAGGCACTGCTTGAACATGAAAGCGCCAAACTAAAA
GAATGTGATGAAGCGCTTCAAAGAGAAATGCGCGAATGGAAAGCCATGCTGATGCCAAGG
AAACAGAAAATATTGGATGAAATTTGGCTTCAAATAGATAATTATGAGCAAAAGTATGGA
TTGTGTGATAAATCAGAGTTTGATGGAGAATTCATTGTACCACCAGAAGTAAGAAATCGA
ATGAATAATGCAAAAGGTTCTTTACGTATTCACGGAGGTTTGTTAACAATATCACGTTCA
AGAACTTTTCTTTCATTATCGAAAAATGCCAAATCTTCAATTCATAATTCCACACCAGAC
TTGAGTCGTTCAGTGTCAGTCCCTAACACTCCTGGATCCAGTCATAAGCTTTCATTAACA
TCTTCATATGATTCAGTTCTTGAAGAAAATGAAGAAGAAGGAGTTGTGGTTATAAGGAAA
GGAAAAGAAGTTAAGAAATCTCAACGAAGTTCTGTACAGCATATTTTCGATCAAAATCCA
TCACGACGCAAGTCTGAAGATTTTCTTGATTCACGAACAGCGACTGAAAAGAAAATGTAT
TTAAACCAATCAGAAAATGCATATCGACTAATACCAAGAGTGAAAAAAACTTCTGAGCAT
GGTACGATAAATAAACAATCAGCTGATATCAAAGAAGTGTCTCATCTTGTTGCATCTACT
TCAAAACCGTCATTGTCAATAAATTCTGAAACGGGGTTCAATAGTCAATGGGGTCAAGCT
CGTCATTCAAATTCTTTTACTGCTGACCTAAATGTTTCTAATTTAACAACCTATACTATT
CCTAGAGTCACATTAACTCATCAAAGAGCGCATTCAAATGATTTTAAAAATTCGTCCATT
GTTTCAAAAAAAGTTAATTCTGAAAATAAAACTTCTACATTCATAATGAAGCATGATATT
AAAGATTCATCTGCTTAA
>g6583.t1 Gene=g6583 Length=765
MHINVRNNTSNKNHQHHLQDKSDVESIISTTASHDSREPDDGMEGVQLRNKEPQDIIVSS
STSPKAPPTRTKEEIQIANLKKKTRKRTRKFEIDGVQVTTTTSKVIYGDEENGRLYDDHI
FRKQELRELKLLQKQEKKQFYELQAKEQIAKDQQDKKFEQERLALERTYEADMDVLARQH
KQTVEKYEQQQENELRNTSKKIRMEQERELKLFRDALKQELRLLKQEIDLLPKDKRKDEF
RKRKTSMEVEHEEREKQFLANLSEQHEIALRRISEIYREKMAATEKSYLQQKQTAMRTRE
AMLWELEEKHIHEKHQLSKRHVKELCFMQRHQMIIRHEKELDQIKKMLQRKEEELIKRQT
IEKRALPKRIRAERKARDMMFRESLRISVHHDPKAEEEKIKKFQEQEKKRYMQEQQRFET
KHIKQLEELRANCDSTIRELEQMQNEKRKALLEHESAKLKECDEALQREMREWKAMLMPR
KQKILDEIWLQIDNYEQKYGLCDKSEFDGEFIVPPEVRNRMNNAKGSLRIHGGLLTISRS
RTFLSLSKNAKSSIHNSTPDLSRSVSVPNTPGSSHKLSLTSSYDSVLEENEEEGVVVIRK
GKEVKKSQRSSVQHIFDQNPSRRKSEDFLDSRTATEKKMYLNQSENAYRLIPRVKKTSEH
GTINKQSADIKEVSHLVASTSKPSLSINSETGFNSQWGQARHSNSFTADLNVSNLTTYTI
PRVTLTHQRAHSNDFKNSSIVSKKVNSENKTSTFIMKHDIKDSSA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g6583.t1 | Coils | Coil | Coil | 173 | 234 | - |
| 10 | g6583.t1 | Coils | Coil | Coil | 259 | 279 | - |
| 15 | g6583.t1 | Coils | Coil | Coil | 334 | 354 | - |
| 13 | g6583.t1 | Coils | Coil | Coil | 394 | 421 | - |
| 11 | g6583.t1 | Coils | Coil | Coil | 423 | 472 | - |
| 12 | g6583.t1 | Coils | Coil | Coil | 760 | 765 | - |
| 9 | g6583.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 6 | g6583.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 49 | 73 | - |
| 5 | g6583.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 53 | 69 | - |
| 7 | g6583.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 554 | 579 | - |
| 8 | g6583.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 607 | 631 | - |
| 3 | g6583.t1 | PANTHER | PTHR46538:SF3 | - | 7 | 499 | 9.8E-150 |
| 4 | g6583.t1 | PANTHER | PTHR46538 | - | 7 | 499 | 9.8E-150 |
| 2 | g6583.t1 | Pfam | PF12474 | Polo kinase kinase | 148 | 285 | 3.0E-33 |
| 1 | g6583.t1 | Pfam | PF12474 | Polo kinase kinase | 315 | 455 | 3.4E-35 |
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:0004674 | protein serine/threonine kinase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K08836 (STE20-like kinase)
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.
