Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Dynamin-1-like protein.

Parent gene

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 g5100 g5100.t4 TTS g5100.t4 6871613 6871613
chr_2 g5100 g5100.t4 isoform g5100.t4 6871942 6873228
chr_2 g5100 g5100.t4 exon g5100.t4.exon1 6871942 6872518
chr_2 g5100 g5100.t4 cds g5100.t4.CDS1 6872502 6872518
chr_2 g5100 g5100.t4 exon g5100.t4.exon2 6872582 6873228
chr_2 g5100 g5100.t4 cds g5100.t4.CDS2 6872582 6873218
chr_2 g5100 g5100.t4 TSS g5100.t4 NA NA

Sequences

>g5100.t4 Gene=g5100 Length=1224
AACTAATTCAATGGTGGAAAATTTAGTTGCCATAGAACTTGCATATATCAATACGAAACA
TCCAGATTTTTACAAAGAAGCTGCAATGGTGCCGAGCTTATTGAAAAATGATCAAGGTGA
ACCATGGAATATTCCAGGAAATCCGCCATCTCGACGCATTCTAAAACCAACTCAAAATGC
TCCAAATTCAAACAGTGATATCAATGATTTATCAAATCATATTAACGAGGCTGGTTCACA
ACAGCAAGCAAATTGGCTCTCAAATATCTTACCACCTGCAAAAACTGAAAGTGTTGAGAG
CTCTCAATCAAATACTCCAACTCATGGTATTATGAGTCCAATGAAGCCTGTCAATTTGCT
TCCAGATATTCCAATAAATACTTCATCAAGAAAATTAACGGATAAAGAACAAAAGGATTG
TGATGTGATTGAAAGATTGATCAAAAGTTATTTCTATATTATAAGAAAATCTATTCAGGA
TTCGGTGCCAAAGGCTATTATGCATTTTCTCGTTAATTTTGTTAAAGACAATGTTCAATC
TGAACTTGTTACGCATTTGTATAAATCTGAGCGCGCTGAGGAATATCTCAATGAGTCAGA
GCATATTGCTATACGTAGAAAGGAAGCATCAGACATGTTGAAGGTCAGCACTCACGAGAG
CTAATCACATAATATCGGAGATCCGGGAAACTCATTTATGGTGAGCAACTCCTTCTGGTG
AATCATCTTTATTCTTCTTTTTTAGTAAACAGACTTGAGCTTTTAGTTTTTAATTTCCTC
GACATGAAGTAATATATTCAATAAGTATTTAAAGTCAATTTGCAAACAACAAAAAACTTG
TAACTTTCTACAACTTATCTAAAACCGTTTTATTTTAGTCGCAACTAACTAAAAATCAGC
TAATTTTAGTCGATTGAAAATAAAAATTATTTGAATAATTTTTTTTCGAATTTTAACCGT
TTAAAAAATCAATTATTCAACAAATTAGTCTACTAAAATCGATTTTATTCGGTTAAATAA
CAACTAAAAATTATTCAGTTTTTTTAATCGATCAAAATTTATTTGATTTTTGGTTTAAAA
ACGGTTTCGAACTCAAATTTTTTCTTTTATTCTTGAAAAAGGTATATGAAAATGTTGACA
TTGTCTGAAAATTTACCAATTACTCTGATATATAATTGGAAATCAAAGCCGATTTCAATA
AATTTTTGTGACTTCACTCGTTAA

>g5100.t4 Gene=g5100 Length=217
MVENLVAIELAYINTKHPDFYKEAAMVPSLLKNDQGEPWNIPGNPPSRRILKPTQNAPNS
NSDINDLSNHINEAGSQQQANWLSNILPPAKTESVESSQSNTPTHGIMSPMKPVNLLPDI
PINTSSRKLTDKEQKDCDVIERLIKSYFYIIRKSIQDSVPKAIMHFLVNFVKDNVQSELV
THLYKSERAEEYLNESEHIAIRRKEASDMLKVSTHES

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g5100.t4 Gene3D G3DSA:1.20.120.1240 - 1 194 0.000
6 g5100.t4 Gene3D G3DSA:2.30.29.30 - 27 119 0.000
5 g5100.t4 Gene3D G3DSA:3.40.50.300 - 195 212 0.000
2 g5100.t4 PANTHER PTHR11566:SF39 DYNAMIN-1-LIKE PROTEIN 1 215 0.000
3 g5100.t4 PANTHER PTHR11566 DYNAMIN 1 215 0.000
1 g5100.t4 Pfam PF02212 Dynamin GTPase effector domain 133 212 0.000
8 g5100.t4 ProSiteProfiles PS51388 GED domain profile. 137 217 23.237
4 g5100.t4 SMART SM00302 GED_2 132 212 0.000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5100/g5100.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5100.t4.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005525 GTP binding MF
GO:0016559 peroxisome fission BP
GO:0003924 GTPase activity MF
GO:0000266 mitochondrial fission BP

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.

Raw TPM values