General information for g5875.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dynein-1-beta heavy chain, flagellar inner arm I1 complex.
Parent gene
- The parent gene g5875 is located on chr_2: 12558692..12560618 (- 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 | g5875 | g5875.t1 | isoform | g5875.t1 | 12556854 | 12560618 |
| chr_2 | g5875 | g5875.t1 | exon | g5875.t1.exon1 | 12556854 | 12556993 |
| chr_2 | g5875 | g5875.t1 | cds | g5875.t1.CDS1 | 12556854 | 12556993 |
| chr_2 | g5875 | g5875.t1 | exon | g5875.t1.exon2 | 12557049 | 12559742 |
| chr_2 | g5875 | g5875.t1 | cds | g5875.t1.CDS2 | 12557049 | 12559742 |
| chr_2 | g5875 | g5875.t1 | exon | g5875.t1.exon3 | 12559801 | 12560508 |
| chr_2 | g5875 | g5875.t1 | cds | g5875.t1.CDS3 | 12559801 | 12560508 |
| chr_2 | g5875 | g5875.t1 | exon | g5875.t1.exon4 | 12560567 | 12560618 |
| chr_2 | g5875 | g5875.t1 | cds | g5875.t1.CDS4 | 12560567 | 12560618 |
| chr_2 | g5875 | g5875.t1 | TSS | g5875.t1 | NA | NA |
| chr_2 | g5875 | g5875.t1 | TTS | g5875.t1 | NA | NA |
Sequences
>g5875.t1 Gene=g5875 Length=3594
ATGGATATTGATGATGATAATTATTCTACAGATTCAAGTGAGAGAGAGCAAAATGCCAAT
TTGATTGTTGAGGTGGTTGAAGAAGAAGAGCAGATACCAACTCCTTCTTACACTGAAGCT
GAGCTTAACAAGTTACTTTTGTACATCATACAAATTGTAACATCATATGATCTTAATGAT
GATGACATTGATGAGTCATTCAATGTATGTGTGAAAAAGTGGCTTTATGATACTATGGAA
ACGCATGTTTTTGTTTATTTTGACAACGGATATTTGAGTGCAAGTGCAGCTGTACCGACA
TGTCCTGTTTCACAGTTGACTTATTTTATACGTGAAGAAGTGATGCATGTCTTCAAAGTT
GAAAGCTTTCATGATGAAGTGACTTTTGGAACGATTCATGAGAATATTGATGAAACAATG
TTAATGTTGTTGCATACAATTTATATTCCAAGAATTCTTAAAGACAAGAGATGGACGGAG
CAAATAAGACAGAGACTTTTTAATGATATGCATTCATTGATGGCACTCTTGACTGATATA
AATTCAAAAATTGGATCGATGGTGATTTTGTATGTGCCAAATGAAGGTCATAATATGAGT
ATCGAAAGAGTTGTTTGTGATAAGCCTTTATTGAAGAGATATGAAAATGTTCTCAATTAT
TGGATTTCTCAAATTCAATTATGCATTAATGATATGAAAAATATTAATCAAAATATTTTA
CCATGTCCATCAGATGAATATGATTTTTGGGTTTATAAATTTGAAGTCTTTAGTGGAATA
GACACGCAATTGAAGCACAAAAATATTCAACACATCATCAATGTTCTTACAAAATCTCAA
TCTCTTTTCATTAAAGAATTCAACACTTTAATGAATGAACTTCAAAATGAAATCAAACAA
TCGAGTTCTAATGCAAAATTTTTGAAACTTCTCGTTGCACCATGTCAAGAACTTGAAAAT
TCAGAATGGCCAAAAGATGTCCCACCGAAATTACCAAAAATTATTTATTTAATTCGCGTC
ATTTCACTCAATTCAGAATTTTACATTAACAAGGAAAACACTGAAAGACTTTTTATGTAT
CTCAGCAATGAAATCATCAATTATTGCAAATCTAAAATTGACATTCGAAAAATTCTTTAT
GGTCAACCTCGTTTTGGTATTAGAATTTGTGACATGTCAATCGACTGTTGTCTTGCTTAT
AAAAAGATTTTTAAGAAAATTGTTGAAAAGTTTCAATTTGAAGACTTTCGTCGCACATGG
CTTTTTGATGAATCTAAAATTTTTAGTCGTATCAATATTTTTATGCAACGACTTTATGAT
ATTATGGAAATTTGCGAGAGTATAATTGTATTTGGTAGATGTGATGAAACGGGTCCAATT
GCACCATTGAAATTTGGTTGTTATAATGCGCACGAATTCATGAAAATTTGTGATGACATT
CAGGTGAAGTTTGATGCAGCTTTGACTGATATTAAACAATCAGCAACTAAAATTCTTGAT
GTAAACAGTCCTAATTGGTATGAGACAATTTCTACATTCAAGAAAACAATGAAAACGTTA
GAAGGAAATGTTGAAAGTCTTCTAGTTCATGCATTTATTCATATCAATAATATTGAAGAA
GCTCTTGATATTTTGACTGCAATGTACAACTTTTCTAAACGCAAAAGTCTTCAAGCAGAA
TACACAAGAAAAGTGGAAGAAATGTGGAATATGTTTGGTGAAGAATTGATTCTTACGAAT
AAAGAAATTACAAATTCAGAAAAAATTCATTTAGCTTGTTTGCCTACATATTCTGGGAAA
TCACTTGCATTATTTATAAGAATGAAAAAGATTGAACGATTGAAGGATATTCTCTTGAAT
GCTCACTATCTTCCAAAAGTTTGGTGTATTGAAGAGAAAATGAAAATGTATCAATCAACA
GTTGAAAATATCATGAAACGAATTGAAAGCTATCATATTGAATGGACATCAAAATTAAGT
CAACAACCGCAATTATATTTGAGTAGATTCTTGATTAATCGAAGTGCTACACATGGTGGA
TTGCTTGAATGCAACATTGATCGTCATATTCTGCCAATAATGGAAGAAATTAAGCATTTT
GAATTTATGGAAATGCCAATCTCAGCAGCTTTCACTCAACTTTATCTCAAATATGGACGT
TATATGAATGTTTACAATAAAGTTGTCAATGTAGTTCTATTACATAATAGAATTCTTTGC
TCACTCTCAGATAAAGAACGTTTGCTTTTTAAAGAGCACATCATGCAAATGGATCGAAAA
ATTTCACCTGGCATGTTTCGGCTTACTTATCTCGATGAGCTTATTGACGCTTTCATTAGT
GAATGTCTTGTTCATTTAGAAGAATTGCAAGATTTTGTTGACATTTATAAAACCATCAAT
CAAGTAATTGTAAAATTATTTGAAGAAATAAGCAATGGTTCATTACAGAACATCAATATA
AGGACGCTTGGATCACTTTCTAGATTTAGAAAACGTTTAAGAGAGAGTCGCAATGCATCT
GTTAGGCAAATTGGTGAAAATTATAAAAAAGTTGTCGAATACATAATTACTATTTATGAT
GGCTTTGAAAGTCATTTGAACACAACTGAAATGACTGAAAGGTGGACAAATTATGTCAAA
AAAATCGATGGTTTGGCTGAATATGCGATTGTAAGTGCTGCTCGAAATACATTGGTTTGC
ATTTATGAAATGTTAAAAGGAAGAAATAATATGAAACCAGATCCAATAATTTCTGTTGAA
ATTACTTTGACTGAGAGAAAAATTGAGTTTGAACCAGCTTTGGAAGAGGTTTTTGATTGT
ATCAAATATATTTACAAAGATTTAACAAAAAGTATTAAAATTTTTCCTCGATTGGTTGAA
AAATTTGATTTGCCACATGTGAGTGATATTCGACATTTTTATGAAGTCGTTCATGAAGAC
ATTGAATGTCGTGAAATTTACTATCAAATAAATTCAGTTCTTGAATTATTACTTGATAAA
ATCAATGATTATGTTGAAACTTGGTTGCTGTTTAGAATTGTTTGGGAAATTGAAATTGAA
AAATTCATGACTCGTTTTGAAGAGAATGGATTAGACTTGAAAGAATTTGAGAATAGTATG
TTGAAATATTATGATGTATCAAATCAAGTAATGATGCAGGACACAACAGTTGTCATCGCT
TTTCTAACACTTGATTGTTCAAAATTGAAAGCCTGTGTACTGGAATATATTGAAATGTGG
AAAAATGGTTACAAACAAACTTTGTGCTCTACTATGATCAAAAAACTTGAAATGCACGAT
GATCGATTGACATCAAGAATTAAAATTTTGAGTGAACAACCAACAAATGCAATTGAATTG
AACACTCTTTTGAGTTTACATGATCAATCATTGAAAGAATATGGCGAGCGTGAAAAGGAT
ATGGATGAGATAAGAGAATATTATAAATATTTGGAAAAATATAAAATTGCTGCACCTTCA
ACTCTTATTGTCAATTATGAAAATATGGGAAAAAATTGGAATTGGTATTGTCGACGATTA
CGTGAGATTGATGATGAACTCTACAATTTTAAAGAACAATTCAAAATGGGATAA
>g5875.t1 Gene=g5875 Length=1197
MDIDDDNYSTDSSEREQNANLIVEVVEEEEQIPTPSYTEAELNKLLLYIIQIVTSYDLND
DDIDESFNVCVKKWLYDTMETHVFVYFDNGYLSASAAVPTCPVSQLTYFIREEVMHVFKV
ESFHDEVTFGTIHENIDETMLMLLHTIYIPRILKDKRWTEQIRQRLFNDMHSLMALLTDI
NSKIGSMVILYVPNEGHNMSIERVVCDKPLLKRYENVLNYWISQIQLCINDMKNINQNIL
PCPSDEYDFWVYKFEVFSGIDTQLKHKNIQHIINVLTKSQSLFIKEFNTLMNELQNEIKQ
SSSNAKFLKLLVAPCQELENSEWPKDVPPKLPKIIYLIRVISLNSEFYINKENTERLFMY
LSNEIINYCKSKIDIRKILYGQPRFGIRICDMSIDCCLAYKKIFKKIVEKFQFEDFRRTW
LFDESKIFSRINIFMQRLYDIMEICESIIVFGRCDETGPIAPLKFGCYNAHEFMKICDDI
QVKFDAALTDIKQSATKILDVNSPNWYETISTFKKTMKTLEGNVESLLVHAFIHINNIEE
ALDILTAMYNFSKRKSLQAEYTRKVEEMWNMFGEELILTNKEITNSEKIHLACLPTYSGK
SLALFIRMKKIERLKDILLNAHYLPKVWCIEEKMKMYQSTVENIMKRIESYHIEWTSKLS
QQPQLYLSRFLINRSATHGGLLECNIDRHILPIMEEIKHFEFMEMPISAAFTQLYLKYGR
YMNVYNKVVNVVLLHNRILCSLSDKERLLFKEHIMQMDRKISPGMFRLTYLDELIDAFIS
ECLVHLEELQDFVDIYKTINQVIVKLFEEISNGSLQNINIRTLGSLSRFRKRLRESRNAS
VRQIGENYKKVVEYIITIYDGFESHLNTTEMTERWTNYVKKIDGLAEYAIVSAARNTLVC
IYEMLKGRNNMKPDPIISVEITLTERKIEFEPALEEVFDCIKYIYKDLTKSIKIFPRLVE
KFDLPHVSDIRHFYEVVHEDIECREIYYQINSVLELLLDKINDYVETWLLFRIVWEIEIE
KFMTRFEENGLDLKEFENSMLKYYDVSNQVMMQDTTVVIAFLTLDCSKLKACVLEYIEMW
KNGYKQTLCSTMIKKLEMHDDRLTSRIKILSEQPTNAIELNTLLSLHDQSLKEYGEREKD
MDEIREYYKYLEKYKIAAPSTLIVNYENMGKNWNWYCRRLREIDDELYNFKEQFKMG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g5875.t1 | Coils | Coil | Coil | 284 | 311 | - |
| 2 | g5875.t1 | PANTHER | PTHR46532:SF6 | DYNEIN AXONEMAL HEAVY CHAIN 9 | 76 | 1195 | 7.6E-120 |
| 3 | g5875.t1 | PANTHER | PTHR46532 | MALE FERTILITY FACTOR KL5 | 76 | 1195 | 7.6E-120 |
| 1 | g5875.t1 | Pfam | PF08385 | Dynein heavy chain, N-terminal region 1 | 212 | 778 | 1.5E-92 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5875/g5875.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5875.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
