General information for g5649.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Atypical protein kinase C.
Parent gene
- The parent gene g5649 is located on chr_2: 10885150..10887248 (+ 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 | g5649 | g5649.t1 | isoform | g5649.t1 | 10885150 | 10887248 |
| chr_2 | g5649 | g5649.t1 | exon | g5649.t1.exon1 | 10885150 | 10886783 |
| chr_2 | g5649 | g5649.t1 | cds | g5649.t1.CDS1 | 10885150 | 10886783 |
| chr_2 | g5649 | g5649.t1 | exon | g5649.t1.exon2 | 10887095 | 10887248 |
| chr_2 | g5649 | g5649.t1 | cds | g5649.t1.CDS2 | 10887095 | 10887248 |
| chr_2 | g5649 | g5649.t1 | TTS | g5649.t1 | 10888073 | 10888073 |
| chr_2 | g5649 | g5649.t1 | TSS | g5649.t1 | NA | NA |
Sequences
>g5649.t1 Gene=g5649 Length=1788
ATGCCCGTAGTCAACAGTAACAACAACGACTCGTCGGCGCTTGCAAATGACGTTAAAGTG
AAAATTGCCTATAATGGTGAAGTGCTTATCTTTTATATTGATGAAAACATCACGTATGAA
GAATTGTGTAAAGAAATTCGCGGCATTTGTCGTTTTGCACCGGATCAAGTCTTTACAATG
AAATGGATTGATGAAGAAAATGATCCATGCACAATCAGCTGTCAAATGGAATTAAATGAA
GCAATTCGCTTATATGAAGTAAATCGCGATTCTGAACTTTTTATTCATGTCTTTCCAAAT
GCACCCGCCGCACCTGGATTATCATGCATTGGTGAAGATAAGAGTATATATAGACGTGGT
GCAAGACGTTGGCGAAAACTTTATCGCATCAATGGACATATTTTTCAAGCAAAGAGATTT
AATCGACGAGCATTTTGCGCATTTTGTCACGATCGTATTTGGGGTTTAGGTAGACAAGGT
TTCAAATGCATTCAATGCAAACTGTTAGTACACAAAAAGTGTCACAAAATGCTACAAAAG
CCCTGTAATGAGCAAGTTGAGCCAATTGATAGAATTGAACGTAATGGCGAAAGTGATCAA
AAAACTGCACATCCAGAAGTGTCAACAACAATTGTCGAATTTCAATCAGGTGAAGGCGAT
CAAGTTGCTGTCGAATCACCACCACAGTCGCACACTGATGAACCACTTGAGCCGGGCTCA
CAGCGGCAATATTCTCTTATTGATTTTGAGCTCATACGAGTAATTGGTCGTGGCAGTTAT
GCGAAAGTTCTTATGGTCGAATTGAAACGCACAAAACGAATTTATGCGATGAAAGTCATC
AAAAAAGCACTCGTGACAGATGATGAAGATATCGATTGGGTGCAAACTGAGAAGCACGTC
TTTGAAACTGCCTCAAATCATCCATTTCTCGTGGGACTTCATTCGTGCTTCCAAACGCCC
TCACGGCTCTTTTTTGTCATTGAATTTGTCCGAGGAGGCGATTTGATGTTTCATATGCAG
CGACAGCGACGACTCCCTGAAGAGCATGCTCGTTTTTATGCTGCCGAAATCAGCTTAGCA
TTAAACTTTCTCCATGAAAAGGGCATCATTTATCGCGATTTAAAATTAGACAATGTGTTA
TTGGATCATGAAGGACATATTAAATTAACAGATTATGGCATGTGCAAGGAAGGAATTAAA
CCAGGCGATACAACTGCTACTTTCTGCGGCACACCAAATTATATTGCACCTGAAATTCTT
CGTGGTGAAGATTATGGCTTTAGTGTTGATTGGTGGGCACTTGGTGTGCTGCTTTATGAA
ATGTTGGCTGGCAGATCACCATTTGACATTGCTGGTGCTTCAGAAAATCCTGATCAAAAT
ACAGAAGACTATCTTTTCCAGGTTATTCTCGAAAAAACTATTCGTATTCCTCGCTCATTA
AGTGTAAAAGCTGCATCAGTGCTGAAGGGCTTCCTAAATAAAAATCCACTTGATCGATTG
GGTTGCAGTCGTGAAGGATCATTTATGGATATTGCAAATCATCCATTTTTCAAACAAATT
GATTGGAATATGCTTGAACAAAAGCAAGTTACACCACCATTTAAACCACGATTAGATAAT
GAAAGAGATATAAGAGATGATTTAGCCAATTTCCCTCCAGAATTTACTGATGAACCGGTT
CATTTAACACCAGATGATGAGCGTGTAATCGAGAAAATCGATCAGTCAGAATTCGAAGGA
TTTGAGTATGTTAATCCGCTACTTATGTCTCTTGAAGACTGCGTTTAA
>g5649.t1 Gene=g5649 Length=595
MPVVNSNNNDSSALANDVKVKIAYNGEVLIFYIDENITYEELCKEIRGICRFAPDQVFTM
KWIDEENDPCTISCQMELNEAIRLYEVNRDSELFIHVFPNAPAAPGLSCIGEDKSIYRRG
ARRWRKLYRINGHIFQAKRFNRRAFCAFCHDRIWGLGRQGFKCIQCKLLVHKKCHKMLQK
PCNEQVEPIDRIERNGESDQKTAHPEVSTTIVEFQSGEGDQVAVESPPQSHTDEPLEPGS
QRQYSLIDFELIRVIGRGSYAKVLMVELKRTKRIYAMKVIKKALVTDDEDIDWVQTEKHV
FETASNHPFLVGLHSCFQTPSRLFFVIEFVRGGDLMFHMQRQRRLPEEHARFYAAEISLA
LNFLHEKGIIYRDLKLDNVLLDHEGHIKLTDYGMCKEGIKPGDTTATFCGTPNYIAPEIL
RGEDYGFSVDWWALGVLLYEMLAGRSPFDIAGASENPDQNTEDYLFQVILEKTIRIPRSL
SVKAASVLKGFLNKNPLDRLGCSREGSFMDIANHPFFKQIDWNMLEQKQVTPPFKPRLDN
ERDIRDDLANFPPEFTDEPVHLTPDDERVIEKIDQSEFEGFEYVNPLLMSLEDCV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g5649.t1 | CDD | cd06404 | PB1_aPKC | 18 | 100 | 1.4544E-43 |
| 19 | g5649.t1 | CDD | cd00029 | C1 | 133 | 182 | 2.98086E-16 |
| 21 | g5649.t1 | CDD | cd05588 | STKc_aPKC | 253 | 584 | 0.0 |
| 14 | g5649.t1 | Gene3D | G3DSA:3.10.20.90 | - | 12 | 100 | 3.6E-39 |
| 16 | g5649.t1 | Gene3D | G3DSA:3.30.60.20 | - | 117 | 185 | 1.5E-20 |
| 15 | g5649.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 248 | 579 | 1.6E-134 |
| 17 | g5649.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 333 | 552 | 1.6E-134 |
| 5 | g5649.t1 | PANTHER | PTHR24351:SF216 | PROTEIN KINASE C | 28 | 587 | 1.6E-294 |
| 6 | g5649.t1 | PANTHER | PTHR24351 | RIBOSOMAL PROTEIN S6 KINASE | 28 | 587 | 1.6E-294 |
| 18 | g5649.t1 | PIRSF | PIRSF000554 | PKC_zeta | 1 | 595 | 0.0 |
| 7 | g5649.t1 | PRINTS | PR00008 | Diacylglycerol/phorbol-ester binding signature | 130 | 144 | 1.1E-6 |
| 8 | g5649.t1 | PRINTS | PR00008 | Diacylglycerol/phorbol-ester binding signature | 146 | 155 | 1.1E-6 |
| 10 | g5649.t1 | PRINTS | PR00008 | Diacylglycerol/phorbol-ester binding signature | 159 | 170 | 1.1E-6 |
| 9 | g5649.t1 | PRINTS | PR00008 | Diacylglycerol/phorbol-ester binding signature | 171 | 183 | 1.1E-6 |
| 3 | g5649.t1 | Pfam | PF00564 | PB1 domain | 18 | 99 | 3.3E-13 |
| 4 | g5649.t1 | Pfam | PF00130 | Phorbol esters/diacylglycerol binding domain (C1 domain) | 133 | 183 | 7.2E-12 |
| 2 | g5649.t1 | Pfam | PF00069 | Protein kinase domain | 249 | 517 | 1.5E-65 |
| 1 | g5649.t1 | Pfam | PF00433 | Protein kinase C terminal domain | 546 | 583 | 2.7E-6 |
| 27 | g5649.t1 | ProSitePatterns | PS00479 | Zinc finger phorbol-ester/DAG-type signature. | 133 | 182 | - |
| 28 | g5649.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 255 | 282 | - |
| 26 | g5649.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 369 | 381 | - |
| 30 | g5649.t1 | ProSiteProfiles | PS51745 | PB1 domain profile. | 17 | 100 | 24.61 |
| 31 | g5649.t1 | ProSiteProfiles | PS50081 | Zinc finger phorbol-ester/DAG-type profile. | 132 | 182 | 14.49 |
| 32 | g5649.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 249 | 517 | 46.633 |
| 29 | g5649.t1 | ProSiteProfiles | PS51285 | AGC-kinase C-terminal domain profile. | 518 | 593 | 16.429 |
| 22 | g5649.t1 | SMART | SM00666 | PB1_new | 17 | 98 | 1.8E-20 |
| 25 | g5649.t1 | SMART | SM00109 | c1_12 | 133 | 182 | 4.7E-12 |
| 24 | g5649.t1 | SMART | SM00220 | serkin_6 | 249 | 517 | 8.3E-97 |
| 23 | g5649.t1 | SMART | SM00133 | pkinase_C_6 | 518 | 585 | 4.0E-18 |
| 13 | g5649.t1 | SUPERFAMILY | SSF54277 | CAD & PB1 domains | 15 | 99 | 2.75E-26 |
| 11 | g5649.t1 | SUPERFAMILY | SSF57889 | Cysteine-rich domain | 112 | 183 | 1.0E-18 |
| 12 | g5649.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 248 | 550 | 1.91E-86 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5649/g5649.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5649.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005524 | ATP binding | MF |
| GO:0005515 | protein binding | MF |
| GO:0004674 | protein serine/threonine kinase activity | MF |
| GO:0007163 | establishment or maintenance of cell polarity | BP |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
| GO:0035556 | intracellular signal transduction | BP |
KEGG
Orthology
- This transcript has been annotated with K06069 (atypical protein kinase C iota type)
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.
