Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative WD repeat-containing protein 75.

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 g5194 g5194.t15 isoform g5194.t15 7609963 7611055
chr_2 g5194 g5194.t15 exon g5194.t15.exon1 7609963 7610511
chr_2 g5194 g5194.t15 cds g5194.t15.CDS1 7609963 7610511
chr_2 g5194 g5194.t15 exon g5194.t15.exon2 7610566 7610773
chr_2 g5194 g5194.t15 cds g5194.t15.CDS2 7610566 7610773
chr_2 g5194 g5194.t15 exon g5194.t15.exon3 7610862 7611055
chr_2 g5194 g5194.t15 cds g5194.t15.CDS3 7610862 7611055
chr_2 g5194 g5194.t15 TSS g5194.t15 NA NA
chr_2 g5194 g5194.t15 TTS g5194.t15 NA NA

Sequences

>g5194.t15 Gene=g5194 Length=951
ATGTGTTTAGACATTGATTATCATTACAACAATCAAAATAGCATAATAAATACGAATTCT
TTGGAAAATCACAATCAAAATATTGACAACAATTCAATCACGATGGAATCAACAACAGAT
TTGAAATATAAAGTGAAAAGTATGTGCGGTGGAAGTGTCATTGAGCATAAACCATTATTT
GATTCAAGTGGAGAAAATATTTATGTAGTGCGAAAAGACAAATTAAGAATCTATAGTGTT
GAAACGGGTGAAATTGTTACAGAATTAGATGACAATAAAGATGGCCAAATAATTGGAATT
TATTTAGAAGATAATCAAACAAATCAATGTATAATAACTTGCACAACAAATGGAACGATT
GCCTTTCGAAAGTTGAAATCGAATGTTATTACAGAAAAGAAGAAATTGAATTTTAAGTTC
TCTATATTAAACAAATTTTTGGTGACAACAATCGATGGCAAATTTCATGGTCTTATTCAC
TATAATGATGAGAAAAATTTTTCACAACTTACACTGATTGAGCTGAGCACTAATAAAATC
GTTCATCGCTTTGATACACCGTTTTTAACTAATCAAGCAGATGTGAAAATGAAGTTTGCA
GATGGTAATGGCATAATTGCAATCATATCAAAAACACATCTCTTTATTATTAATAAAGAG
ACATTAGAAATAATTATGCATAGTGCTCCAAAACTATTGAGTGTTGTTGTCTGTCATCCA
GAACAAAAGATTATTGCAACTGGCGATGTTTATGGAAAAATATATTTATGGAGTAATGTT
TTTAATAAAATGCCAGTAAAAACTGATTTGCATTGGCATCACATGGTTGTGCTAAGTCTT
GCATTTTCTCAATCAGGAACAGTGCTTTATTCTGGTGGTGCTGAATGCGTTTTAGTGAAA
TGGCATATTAGAGAAACAACTTTAGGAAAGAACTTTTTACCTCGCGTTTCT

>g5194.t15 Gene=g5194 Length=317
MCLDIDYHYNNQNSIINTNSLENHNQNIDNNSITMESTTDLKYKVKSMCGGSVIEHKPLF
DSSGENIYVVRKDKLRIYSVETGEIVTELDDNKDGQIIGIYLEDNQTNQCIITCTTNGTI
AFRKLKSNVITEKKKLNFKFSILNKFLVTTIDGKFHGLIHYNDEKNFSQLTLIELSTNKI
VHRFDTPFLTNQADVKMKFADGNGIIAIISKTHLFIINKETLEIIMHSAPKLLSVVVCHP
EQKIIATGDVYGKIYLWSNVFNKMPVKTDLHWHHMVVLSLAFSQSGTVLYSGGAECVLVK
WHIRETTLGKNFLPRVS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g5194.t15 PANTHER PTHR44215 WD REPEAT-CONTAINING PROTEIN 75 48 316 0.00
5 g5194.t15 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 226 311 9.23
4 g5194.t15 SMART SM00320 WD40_4 218 258 12.00
3 g5194.t15 SMART SM00320 WD40_4 263 302 0.99
2 g5194.t15 SUPERFAMILY SSF50978 WD40 repeat-like 60 307 0.00

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5194/g5194.t15; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5194.t15.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005515 protein binding MF

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