Gene loci information

Transcript annotation

  • This transcript has been annotated as Intraflagellar transport protein 122-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_4 g14434 g14434.t2 TTS g14434.t2 514857 514857
chr_4 g14434 g14434.t2 isoform g14434.t2 515236 516579
chr_4 g14434 g14434.t2 exon g14434.t2.exon1 515236 516579
chr_4 g14434 g14434.t2 cds g14434.t2.CDS1 515635 516513
chr_4 g14434 g14434.t2 TSS g14434.t2 NA NA

Sequences

>g14434.t2 Gene=g14434 Length=1344
TCGGCAGTTACGGAAGAAAGATTTTTAGATGCAAGTTATTATACATGGTTAAGAGCAAGA
CAATTGATGAAAATGATGGAAATGAATCCTGAAGAAACATCACAGCATCATATTAAAGAA
TTTAAAGTTTTACTACAATTGTCAGCTATTTATTATGCATATGCAACAATTTTTTCATAT
TTAAGAGAACCATTTACTTCATCACCACCATTGACACTATTTAATACAAGTCGTTTTATT
GCAAATCAAATTGGTAACAGCACGCCACCAAAAGGCATTTCAATGTTTAATGTTTATTAT
ACACTTTCAAAACAAGCAAAAGTCCTGGGTGCAAATAAACTTCACTTTCAAATTAATAAC
AAACTACAACAATTAAAAGCACCAAATGGAATTCAAGAACAAGTTGATGTAAACATTATG
AATTCGCGTGGAGCATCTACTTTTAGTGACCCTGAAGACTTGTTACCAATGTGCTATAAA
TGTTCAAACTTTAGCATGCATTTAAGCGGTAATAATTGTCCAAATTGTCAACAAGAATTT
ATTTTTTCTTTTGTATCTTTTGAAATTTTACCTTTGGCTCAATTTTTCCCTGAATCCGAT
ATAAATGAGGAGGAAGCTGAACGATTATTGATGACACCGCCAAAGGAAAATTCTGTTGAT
CCATTTACTGAAACTATCACACAAGATGATATTGGTGATCTATTGCCTATCACACTAAAT
CGTGATGCACTTCGAAGTATTGATCCAAGAAATGTTATTCTCGTTAAAACACCAAAACCA
ATTGCAACAAAATATTATCGAAATTTGTTACCAGAATTACAGATTACAATTTGTCCTGGC
TGTTATCAAGCATTTCATTCTGAAGATTTTGAATTACAAGTTCTACAAAAAGGTTCATGT
CCTTTTTGTCGATTGCCAGAGGATCAACTTTTTGATTGCTATTGAAAAGTTTAAATTTAT
TTTTCTTAATTAACAATACAAGAAACTTATATTTTTTTTAAATTTAAATTAGCATTTTTT
CATGATTTTAAAGGTTGGTTTTTTTTAATTATAGAAGATTTTATTATCATTGAAAAAGGA
AATTTTATGAAATTTTGTAAAACTTTATGGAACATACATGTTGTCTTTTAAATATTTAAT
ATTTGTCACAAAATTTAAAATATCAAAAAATAAATTGGAATGTATTATTTCAAGAATTTT
TAATTTTTTCAGAATTTTTTGAATTGTTGTTTTCGTTTTTATTTAAAATTTTAGACTTTA
TATAAAAATAACAGTAAAAAATTCAAAAATTTCACAAGAGTTTTCTACTTTTCAAAACAA
AATCACGCAGAAAATTAAAAGAAA

>g14434.t2 Gene=g14434 Length=292
MKMMEMNPEETSQHHIKEFKVLLQLSAIYYAYATIFSYLREPFTSSPPLTLFNTSRFIAN
QIGNSTPPKGISMFNVYYTLSKQAKVLGANKLHFQINNKLQQLKAPNGIQEQVDVNIMNS
RGASTFSDPEDLLPMCYKCSNFSMHLSGNNCPNCQQEFIFSFVSFEILPLAQFFPESDIN
EEEAERLLMTPPKENSVDPFTETITQDDIGDLLPITLNRDALRSIDPRNVILVKTPKPIA
TKYYRNLLPELQITICPGCYQAFHSEDFELQVLQKGSCPFCRLPEDQLFDCY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g14434.t2 PANTHER PTHR12764 WD REPEAT DOMAIN-RELATED 8 287 9.1E-80
3 g14434.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
5 g14434.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 39 -
4 g14434.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 40 292 -
2 g14434.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 39 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0060271 cilium assembly 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