Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g8766 g8766.t18 TTS g8766.t18 33043791 33043791
chr_2 g8766 g8766.t18 isoform g8766.t18 33043938 33045090
chr_2 g8766 g8766.t18 exon g8766.t18.exon1 33043938 33044211
chr_2 g8766 g8766.t18 cds g8766.t18.CDS1 33044132 33044211
chr_2 g8766 g8766.t18 exon g8766.t18.exon2 33044315 33044407
chr_2 g8766 g8766.t18 cds g8766.t18.CDS2 33044315 33044407
chr_2 g8766 g8766.t18 exon g8766.t18.exon3 33044467 33044501
chr_2 g8766 g8766.t18 cds g8766.t18.CDS3 33044467 33044501
chr_2 g8766 g8766.t18 exon g8766.t18.exon4 33044561 33044616
chr_2 g8766 g8766.t18 cds g8766.t18.CDS4 33044561 33044616
chr_2 g8766 g8766.t18 exon g8766.t18.exon5 33044672 33044775
chr_2 g8766 g8766.t18 cds g8766.t18.CDS5 33044672 33044775
chr_2 g8766 g8766.t18 exon g8766.t18.exon6 33044832 33045090
chr_2 g8766 g8766.t18 cds g8766.t18.CDS6 33044832 33045090
chr_2 g8766 g8766.t18 TSS g8766.t18 33045133 33045133

Sequences

>g8766.t18 Gene=g8766 Length=821
ATGGTTTTTTGTGCATCAATAACGTTGATTTTAATAATCAATATAATTGTAATTGATGCA
TTTCGCATTGGCAATGTTGAATGTGAAATTGAACCAAAACCCGTGGCATTCTCATCTTTA
AGATGCAGTTCCGAAAAATGTGAAATAAGTTGTATATCAAATTATGAATTTCCAAATGCT
GAAACAAAATTGGATCTTGAATGCAACAATAGAAGAATTTGGGTTGCAAAAAATTACAAC
ACCATTCCTGCTTGCATTCCAATTTGTAATATATCTTGTTTAAATGGAGGTTACTGTATG
GCTCCAAATCAGTGCTATTGTAATCAAAATTTTACTGGAAATCGATGTCAAACTCAGATT
GCTACATGCCCAGATAAAATTCCGATGCCACAAAATACTATGGGGAGATGCATCACATCT
GGAATTCAAAGTTGTAAAGTTACATGCATTCAGGGCCATAAGTTTCCTGACGGAACTTTA
TCAGCTGATTTGAAATGTTACAGTGGACAATGGCAAATGGAACCAAGACAATTTGATAGA
TGTGAACAAATCTTTGTCAATGCTCACCAGATTATCGTGGTAATTTATGTCAATATCGTA
CTGACAATTGTTCTCCTCAAAAAATAGGATTCAATGGACTTTACAAGTGCACTGGTACTT
ATGATAAAATGGAATGCACAATCTCTTGTCCACAAGGTTTTGACATAAGTTTTACTCCCG
TTTCCAAATATACATGCAAATATTCAGAAGGATTTTTTACTCCTCAACAAGTTCCACAGT
GCGATTATAGAGGAATGAAAGTTCAAATTTTACATGCTTAA

>g8766.t18 Gene=g8766 Length=208
MVFCASITLILIINIIVIDAFRIGNVECEIEPKPVAFSSLRCSSEKCEISCISNYEFPNA
ETKLDLECNNRRIWVAKNYNTIPACIPICNISCLNGGYCMAPNQCYCNQNFTGNRCQTQI
ATCPDKIPMPQNTMGRCITSGIQSCKVTCIQGHKFPDGTLSADLKCYSGQWQMEPRQFDR
CEQIFVNAHQIIVVIYVNIVLTIVLLKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g8766.t18 Gene3D G3DSA:2.10.25.10 Laminin 37 117 1.7E-7
10 g8766.t18 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
11 g8766.t18 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
12 g8766.t18 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 13 -
14 g8766.t18 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 20 -
9 g8766.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 183 -
13 g8766.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 184 206 -
8 g8766.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 207 208 -
4 g8766.t18 ProSitePatterns PS00022 EGF-like domain signature 1. 105 116 -
7 g8766.t18 ProSiteProfiles PS50026 EGF-like domain profile. 86 117 9.081
3 g8766.t18 SUPERFAMILY SSF57196 EGF/Laminin 82 124 2.51E-5
5 g8766.t18 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
2 g8766.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 26 -
1 g8766.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 184 206 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

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