General information for g3828.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Kinesin-like protein costa.
Parent gene
- The parent gene g3828 is located on chr_3: 28226414..28229200 (- 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_3 | g3828 | g3828.t1 | TTS | g3828.t1 | 28225741 | 28225741 |
| chr_3 | g3828 | g3828.t1 | isoform | g3828.t1 | 28225823 | 28229200 |
| chr_3 | g3828 | g3828.t1 | exon | g3828.t1.exon1 | 28225823 | 28227350 |
| chr_3 | g3828 | g3828.t1 | cds | g3828.t1.CDS1 | 28225823 | 28227350 |
| chr_3 | g3828 | g3828.t1 | exon | g3828.t1.exon2 | 28227411 | 28229097 |
| chr_3 | g3828 | g3828.t1 | cds | g3828.t1.CDS2 | 28227411 | 28229097 |
| chr_3 | g3828 | g3828.t1 | exon | g3828.t1.exon3 | 28229158 | 28229200 |
| chr_3 | g3828 | g3828.t1 | cds | g3828.t1.CDS3 | 28229158 | 28229200 |
| chr_3 | g3828 | g3828.t1 | TSS | g3828.t1 | NA | NA |
Sequences
>g3828.t1 Gene=g3828 Length=3258
ATGGAGAAGAAAAACGATAATGATGTCTGCATTCAAGTTACTTGTAAATTTTCATATGAC
AATAGACAGTTATACGGATATATAGATCTCATGAATGATAATGCCAAATTAGAAAATTTT
AACAATCAATTTACTTACACTGAAGAGGATAGTAGTGAAAAAATTTTTCGAGAAGTTTTT
GAAGAACAAAGTTTACCTAAACTCTTTATTCTTGGTCATGATTTAACAATTGTTAAATAT
GGCAAAAGAGATGTATTTTATGAAACACAAAATACACCAATTGATCAAACTTTAACATCA
TCTTCCTCTTCATCAAATTCAGAAGACGACGATGATGAAGATGACTCAAGTAGTAGCGAA
CAGAACGATCTGGGAATCGTTCATACATTTATTCGTTCGATTTTTGAAGAGTTAGTAAGC
TTTAAAGACATTCAAACTGAATTTAGTATCGGCTGGACTGAAATAAATGAAAATAATCAA
CTATTAGACCTTTTAATGGACCATGGATTAGTAAAGTGCAACTCTATTACAAAGCTATAT
GATACAATAGCAATAGGACTTAAGAATAAAAACACTTCAAGCAATCACAATATTCTTTCA
ATTGTGCTTGAACAACAATTGCAAAACAACATGATGAATCAAAATGCATTTACCAAACTG
TCAACAATTAATTTTTGTGATTTGAATTATGGAACAGAAAAAGCATTTACCAATCAATTC
ATTAGCGATCCTCGAGATATGCATATGCCTATGAACTTTTATACACAGCCTGTTTTACCG
CAATACTTTACACTACCGCCCCCAATTAACGCTTTCAACAACAATTTTCAATTCTCACCA
CCTGCAATGAATTTTGATACATTTTTCAATGGAAATTATCGACCAGCATTACCATCTGCT
TCTTTTGTTGATCCAAATGTATTGGTTACTCAACAAAATCAAAGACTTTTAAAAAATGCT
GAACTTCTTTTTTCAAAATTGAATCTTAACGAAATGGAAGAGGAGCAACGAAAAGAAATT
CAAGAGTGGATTTATCTTAAAACTGAATGTGATAATTACACAACTCCAACAACTATAGAA
CTTCCTCCATCTTATCATTTTAGTAACAATGCTCATTTATTTGCAAGTCAACTTCCACTA
CCTTCACAACCATTAAATTTTGTTCAACAACAACAGCAAAGTTCTCTTTTGCCTATCATG
GAAATGGATGAAAATGATGATCGAAAAACTGATGATTTAAATGAAAATGATGATGATTCA
GAGAGTGGAAGTTATATTGACATTAATGATCAATCAAATAATTTATTTGAAAAAATAACT
GACAAAATGTCAAATTTTCAAGAGAAAACTGATGAAATTGTTCATAATAAGTGCAGTGAT
TATTTCGATAATAATCCAAAAGTGGTGCTTAGTAGCAGCAACAACAGTGGCCAATCTGAT
AGCAAATCAAAAATAGAGAATAATCAACTAAATGAAGCAATTGCAAGTGGAAGCAATTTG
ATAAAATTATCAACAAATACTTCAACAAGTGAACAATATTTAGCTAAAACTGGACGACGT
CGTTCAATTCGTGACAATAACATTTTGAACAGCGATGAACTAAACCTAATTAAAAAGGCA
GCAGCTGTGACATCAATTGAGACTGACTCAGATTCAATAAAAGACGATGGCGATACAGAA
CAACTTTCAAAGTTAGATGAATTGAGGAAATTAGTCAAAAAATCAATGGCTTCAATTGAT
GCAACAAATTTACAAATAAAAGAAGTTGAACAGACTATTGCACTCAAAAAAAACTTAATA
ACAGATTTAATTGAAAACAACAAGACTCGCATGACTGCCAAGCATAAGTGTAGTAAGAAA
AAGTCAAAATATCAATCAGAGTATGAAAGATGCAAGAAAGATATTAATAAAGCTATAATG
GCTGGTAAAAATCCCCTTGAAATTCAAAGACTTAAGGAAATGGCCTCGAAGTTTGAAGAA
AAACTTTTGGATTTGAACAGCATCAATGAGATTGCAGCAGAATCTTCGTCAAATAAAAAA
GTTAAACAATTGCATAAATCTTTAGAACAATCGAAGAAGCAGCTTGAAGTGCTAAATAAA
GTTCTTAAAAAAGAGAATAAACACAAAGAATCGATAGAAAAAGAGATAGAGAAACAACTC
AAACTCATTGAGGATAACGATATTGACACTCAGAAAAAATTGAAAGCAGGTTCACCATCT
CCACCATCATCGAACTCAAAATTGAGTGACAGTAAAGTAAAAATTAGAGATGTAAATGCA
AGAATCTCACATCTTAACGAAATACTCAAAGAAAAATCTTCTAATTTACAATTGTGTAAA
ATACCTGGTGATGATAAAGAAAAAGAATCACTCAGACACGAGATTAGAAATCTCAGATGG
ACTCGTGATACTTTACTTGAACAAAGATTTTCACTCTGTAAAAAACTCAAGCGCGACAAA
ATATTGACTTATAAAGAGGAAAGAAAGATGTTAGAATGCGATGAGGCAATTGAAGCAATT
GATGATGTTATAGAAGTTAAAAATGAATTAATTTGTGGACACAAGTCAATCGATACTGAT
GAGCGATTGGATCGTGAAAAAGGTGAACGATTGCTAATGGAAAGACTGAACAAGCTATCA
GAAGAAGAAATGCGAATATTGCTCTACAAATATTTTATGAAAGTTATCGATTTGAAAGAA
TCTTGTCGCAAGCTTGAGCAAAATTTGATGTCATTTGAGCGTGATAAAGAAGCATGGGAA
TGGCGTGAGAAAATTTTGACAAATGCCATTCGCCAAGCTCGTTTGGAAAGCGAGAGAAAT
TTAATAATTCAACAGAAAAATCATGAGACCCGTTTGAATTTATTATTGAGACATTTTGCA
AATGAAACAACCACATCAAGTTTAAATGAGAGCAATTTCGATAGCTCATCAAATGGAACT
CCACATTTGCCAGATTATGAAGAACTTAATATTGTCAAGGCAACAAAATCTGCATCTCGT
CATCAATATCATCAGCAACATGCACAAATACATCAAGCACAAGAGATTTCTGATCGTGAT
TATAAGAAAAATTTATTCACAAGATTTCAAATCTTTACTCGTTATCATCAGCAGCAGGGC
TCGTCAAATTCAAATGCATTGGCAGTAGAAAGTGCCATTCCACAAGAAAATTTGAAACAA
TTAAATGAAAAGAAACCAGCAACAAAAGTTACGCGACAAAAGAATAAGCTCATTATTCAA
CAAAATGATATATCTTAA
>g3828.t1 Gene=g3828 Length=1085
MEKKNDNDVCIQVTCKFSYDNRQLYGYIDLMNDNAKLENFNNQFTYTEEDSSEKIFREVF
EEQSLPKLFILGHDLTIVKYGKRDVFYETQNTPIDQTLTSSSSSSNSEDDDDEDDSSSSE
QNDLGIVHTFIRSIFEELVSFKDIQTEFSIGWTEINENNQLLDLLMDHGLVKCNSITKLY
DTIAIGLKNKNTSSNHNILSIVLEQQLQNNMMNQNAFTKLSTINFCDLNYGTEKAFTNQF
ISDPRDMHMPMNFYTQPVLPQYFTLPPPINAFNNNFQFSPPAMNFDTFFNGNYRPALPSA
SFVDPNVLVTQQNQRLLKNAELLFSKLNLNEMEEEQRKEIQEWIYLKTECDNYTTPTTIE
LPPSYHFSNNAHLFASQLPLPSQPLNFVQQQQQSSLLPIMEMDENDDRKTDDLNENDDDS
ESGSYIDINDQSNNLFEKITDKMSNFQEKTDEIVHNKCSDYFDNNPKVVLSSSNNSGQSD
SKSKIENNQLNEAIASGSNLIKLSTNTSTSEQYLAKTGRRRSIRDNNILNSDELNLIKKA
AAVTSIETDSDSIKDDGDTEQLSKLDELRKLVKKSMASIDATNLQIKEVEQTIALKKNLI
TDLIENNKTRMTAKHKCSKKKSKYQSEYERCKKDINKAIMAGKNPLEIQRLKEMASKFEE
KLLDLNSINEIAAESSSNKKVKQLHKSLEQSKKQLEVLNKVLKKENKHKESIEKEIEKQL
KLIEDNDIDTQKKLKAGSPSPPSSNSKLSDSKVKIRDVNARISHLNEILKEKSSNLQLCK
IPGDDKEKESLRHEIRNLRWTRDTLLEQRFSLCKKLKRDKILTYKEERKMLECDEAIEAI
DDVIEVKNELICGHKSIDTDERLDREKGERLLMERLNKLSEEEMRILLYKYFMKVIDLKE
SCRKLEQNLMSFERDKEAWEWREKILTNAIRQARLESERNLIIQQKNHETRLNLLLRHFA
NETTTSSLNESNFDSSSNGTPHLPDYEELNIVKATKSASRHQYHQQHAQIHQAQEISDRD
YKKNLFTRFQIFTRYHQQQGSSNSNALAVESAIPQENLKQLNEKKPATKVTRQKNKLIIQ
QNDIS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3828.t1 | Coils | Coil | Coil | 586 | 606 | - |
| 8 | g3828.t1 | Coils | Coil | Coil | 648 | 668 | - |
| 7 | g3828.t1 | Coils | Coil | Coil | 678 | 722 | - |
| 9 | g3828.t1 | Coils | Coil | Coil | 788 | 808 | - |
| 6 | g3828.t1 | Coils | Coil | Coil | 895 | 922 | - |
| 5 | g3828.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 96 | 121 | - |
| 4 | g3828.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 730 | 752 | - |
| 1 | g3828.t1 | PANTHER | PTHR47969:SF8 | - | 674 | 961 | 1.1E-23 |
| 2 | g3828.t1 | PANTHER | PTHR47969 | CHROMOSOME-ASSOCIATED KINESIN KIF4A-RELATED | 674 | 961 | 1.1E-23 |
| 3 | g3828.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 34 | 228 | 6.73E-6 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K06227 (costal 2)
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.
