General information for g5875.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t2 | isoform | g5875.t2 | 12558692 | 12559742 |
| chr_2 | g5875 | g5875.t2 | exon | g5875.t2.exon1 | 12558692 | 12559742 |
| chr_2 | g5875 | g5875.t2 | cds | g5875.t2.CDS1 | 12558694 | 12559632 |
| chr_2 | g5875 | g5875.t2 | TSS | g5875.t2 | NA | NA |
| chr_2 | g5875 | g5875.t2 | TTS | g5875.t2 | NA | NA |
Sequences
>g5875.t2 Gene=g5875 Length=1051
TTGAAGTCTTTAGTGGAATAGACACGCAATTGAAGCACAAAAATATTCAACACATCATCA
ATGTTCTTACAAAATCTCAATCTCTTTTCATTAAAGAATTCAACACTTTAATGAATGAAC
TTCAAAATGAAATCAAACAATCGAGTTCTAATGCAAAATTTTTGAAACTTCTCGTTGCAC
CATGTCAAGAACTTGAAAATTCAGAATGGCCAAAAGATGTCCCACCGAAATTACCAAAAA
TTATTTATTTAATTCGCGTCATTTCACTCAATTCAGAATTTTACATTAACAAGGAAAACA
CTGAAAGACTTTTTATGTATCTCAGCAATGAAATCATCAATTATTGCAAATCTAAAATTG
ACATTCGAAAAATTCTTTATGGTCAACCTCGTTTTGGTATTAGAATTTGTGACATGTCAA
TCGACTGTTGTCTTGCTTATAAAAAGATTTTTAAGAAAATTGTTGAAAAGTTTCAATTTG
AAGACTTTCGTCGCACATGGCTTTTTGATGAATCTAAAATTTTTAGTCGTATCAATATTT
TTATGCAACGACTTTATGATATTATGGAAATTTGCGAGAGTATAATTGTATTTGGTAGAT
GTGATGAAACGGGTCCAATTGCACCATTGAAATTTGGTTGTTATAATGCGCACGAATTCA
TGAAAATTTGTGATGACATTCAGGTGAAGTTTGATGCAGCTTTGACTGATATTAAACAAT
CAGCAACTAAAATTCTTGATGTAAACAGTCCTAATTGGTATGAGACAATTTCTACATTCA
AGAAAACAATGAAAACGTTAGAAGGAAATGTTGAAAGTCTTCTAGTTCATGCATTTATTC
ATATCAATAATATTGAAGAAGCTCTTGATATTTTGACTGCAATGTACAACTTTTCTAAAC
GCAAAAGTCTTCAAGCAGAATACACAAGAAAAGTGGAAGAAATGTGGAATATGTTTGGTG
AAGAATTGATTCTTACGAATAAAGAAATTACAAATTCAGAAAAAATTCATTTAGCTTGTT
TGCCTACATATTCTGGGAAATCACTTGCATT
>g5875.t2 Gene=g5875 Length=313
MNELQNEIKQSSSNAKFLKLLVAPCQELENSEWPKDVPPKLPKIIYLIRVISLNSEFYIN
KENTERLFMYLSNEIINYCKSKIDIRKILYGQPRFGIRICDMSIDCCLAYKKIFKKIVEK
FQFEDFRRTWLFDESKIFSRINIFMQRLYDIMEICESIIVFGRCDETGPIAPLKFGCYNA
HEFMKICDDIQVKFDAALTDIKQSATKILDVNSPNWYETISTFKKTMKTLEGNVESLLVH
AFIHINNIEEALDILTAMYNFSKRKSLQAEYTRKVEEMWNMFGEELILTNKEITNSEKIH
LACLPTYSGKSLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g5875.t2 | Coils | Coil | Coil | 1 | 21 | - |
| 2 | g5875.t2 | PANTHER | PTHR45703 | DYNEIN HEAVY CHAIN | 4 | 311 | 1.1E-35 |
| 3 | g5875.t2 | PANTHER | PTHR45703:SF17 | DYNEIN HEAVY CHAIN | 4 | 311 | 1.1E-35 |
| 1 | g5875.t2 | Pfam | PF08385 | Dynein heavy chain, N-terminal region 1 | 2 | 310 | 2.2E-48 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5875/g5875.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5875.t2.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. There were no conditions that were differentially expressed