Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein dispatched.

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_3 g9 g9.t2 isoform g9.t2 117277 118129
chr_3 g9 g9.t2 exon g9.t2.exon1 117277 118129
chr_3 g9 g9.t2 cds g9.t2.CDS1 117542 118129
chr_3 g9 g9.t2 TSS g9.t2 NA NA
chr_3 g9 g9.t2 TTS g9.t2 NA NA

Sequences

>g9.t2 Gene=g9 Length=853
TGTGAGTTTAAATTATCACATTTATCAAAATCAATATTAATTTTAAATTTATTTTTAGGA
TGAAGATGTTGCTTTAGTCAAAACACTTTTATTTGATTGCTTTCAATATTATCATGGACT
TAAGTTGGATTACGATTGTACACAATCGAAATGTCGTGTTCCTGATGAATGTGGACAATT
CAATGCAGTTTATAATATTTTGCACTTTTTGACTGATCGCAATTTTATTAAACTCAATGA
AACAGTTGAAAATTTAAGTGCAGCAATGATGTTTCTACCAATTGCAAGGAGCAAAGATGC
TCTGCCATTTTATCATAATTTGATGAAAAAAGGTGAAAATGCTATGCAAAGTGATTTAGT
TGGAGTTGTTGCTATGGATTTAGGAATCAAAAATGCTCTTTTTGATGAGTCATTATTGAA
AGATGCTTGGCTAGTTGGATTAGGATTTCTTTTTGTCCTTATTTGCATGTGGCTGTATAC
ATCATCATTTTTCGTCACTATCAATACAGTTTTTGCAATTATACTCTCACTGGGATTATC
ATATTTTATTTACAACATGATCTTCAAACTCAAATTTTTTCCATTTATGAATTTACTAGT
ATTAATTGTAATCGTAGGTATTGGATCAGATGATGCTTTCATATTTATGAAAATATGGCA
TTGCGTATATACAGAGCGGTTTCGAAAAAATTTCAACTCACCATTGACACCATCTTCATC
ATTTGCATCAGAGCCTTATTCAGAGTCACGAGATTTAGACTCATTAGTTGCCGTCATGGC
TAAGACTTTGGAACATGCAAGCATTTCAATGTTTGTCACCTCATTAACAACAGCTGCAGC
TTTTTATGCCTCA

>g9.t2 Gene=g9 Length=196
MMFLPIARSKDALPFYHNLMKKGENAMQSDLVGVVAMDLGIKNALFDESLLKDAWLVGLG
FLFVLICMWLYTSSFFVTINTVFAIILSLGLSYFIYNMIFKLKFFPFMNLLVLIVIVGIG
SDDAFIFMKIWHCVYTERFRKNFNSPLTPSSSFASEPYSESRDLDSLVAVMAKTLEHASI
SMFVTSLTTAAAFYAS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g9.t2 PANTHER PTHR45951:SF3 PROTEIN DISPATCHED 1 196 5.6E-61
3 g9.t2 PANTHER PTHR45951 PROTEIN DISPATCHED-RELATED 1 196 5.6E-61
1 g9.t2 Pfam PF02460 Patched family 81 193 2.4E-4
8 g9.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 53 -
14 g9.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 71 -
10 g9.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 72 76 -
13 g9.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 96 -
9 g9.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 97 107 -
12 g9.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 108 131 -
11 g9.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 132 196 -
7 g9.t2 SUPERFAMILY SSF82866 Multidrug efflux transporter AcrB transmembrane domain 29 194 1.96E-12
4 g9.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 55 77 -
5 g9.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 100 -
6 g9.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -

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:0016021 integral component of membrane CC
GO:0007224 smoothened signaling pathway 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