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 g8178 g8178.t4 TTS g8178.t4 28936388 28936388
chr_2 g8178 g8178.t4 isoform g8178.t4 28936775 28937652
chr_2 g8178 g8178.t4 exon g8178.t4.exon1 28936775 28937652
chr_2 g8178 g8178.t4 cds g8178.t4.CDS1 28936780 28937451
chr_2 g8178 g8178.t4 TSS g8178.t4 28938282 28938282

Sequences

>g8178.t4 Gene=g8178 Length=878
ACTGAAAGTACTGAAAAAAAGTCAGAAGAAGAAAGTGAAGAGGAGAAACAAGAAAAAGTC
AAGAGAGCTCTAAAATTGATAGAAGAGAAACGCATTGAAAGAATCAAAGAAGAACAACGA
TTGGAAAAAGAAAGAGAGATACGTCGAAGACAGGAAGGTCAACAACTGCAAAATTTGAAA
AAATGGCAGGATGAGCAAGAGATGCTTAAACTACAGGATGAACGAAAAAGAGAAAAATTA
GCAGCTGCAGAAGCACGCAAAAGAGTTTTACAACAAATTGAAGAAGATAAAAAGGAGCGT
GCTCGTCGATTTAATTCAACACCTCCGACAAATGAAGAACCTACGAAAAAAGTCGAAACA
ATTCCGCAAACATCAGCTACAACTATACCTCCAAATTCAGCTAGAATTCAATTTAAAAAA
CCTGATGGAGGAAGTGAAATTGTAACTTTTGATTCGAACATACCTTTTGCTGACCTGCAT
GCATTTGTTAAAACAGATATTCTTAATGGAACAAATATTAAGGAGTTTACATTAGCTACG
ACATTTCCTCGATGTGAATTTTCTCAAACAGATTTTAATAAGACTTTGATCGAACTAAAT
TTGGCACCATCTTCAGTTATATTGATCATTCCTGGAAAAAGAACAGCAACAAATAATAAT
AATAATGCAAACACGATATTGCCTACACAAACAGATGGTAGTATGTTGAGTATGGTTGGA
GCATTGATAATGGGACTTTTTTCACCAGTCTTTGCACTGTTTACTTATTTGAAAAATTTT
ATATTTCGCTCGCAAAATAGTAATGAAGAAGAAAGCAGCAATTATGGACTACAAAAACGA
AATGAAGAGACTTTGGCACCAAATGATGCGTAAGAAAA

>g8178.t4 Gene=g8178 Length=223
MLKLQDERKREKLAAAEARKRVLQQIEEDKKERARRFNSTPPTNEEPTKKVETIPQTSAT
TIPPNSARIQFKKPDGGSEIVTFDSNIPFADLHAFVKTDILNGTNIKEFTLATTFPRCEF
SQTDFNKTLIELNLAPSSVILIIPGKRTATNNNNNANTILPTQTDGSMLSMVGALIMGLF
SPVFALFTYLKNFIFRSQNSNEEESSNYGLQKRNEETLAPNDA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g8178.t4 Coils Coil Coil 1 33 -
4 g8178.t4 Gene3D G3DSA:3.10.20.90 - 59 145 9.2E-17
11 g8178.t4 MobiDBLite mobidb-lite consensus disorder prediction 24 53 -
12 g8178.t4 MobiDBLite mobidb-lite consensus disorder prediction 24 39 -
13 g8178.t4 MobiDBLite mobidb-lite consensus disorder prediction 204 223 -
2 g8178.t4 PANTHER PTHR46424 UBX DOMAIN-CONTAINING PROTEIN 4 3 208 1.4E-33
1 g8178.t4 Pfam PF00789 UBX domain 65 142 4.2E-12
7 g8178.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 167 -
8 g8178.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 168 190 -
6 g8178.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 191 223 -
14 g8178.t4 ProSiteProfiles PS50033 UBX domain profile. 62 142 19.179
10 g8178.t4 SMART SM00166 ubx_3 59 144 1.2E-11
3 g8178.t4 SUPERFAMILY SSF54236 Ubiquitin-like 11 143 3.36E-20
9 g8178.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 168 190 -

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: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.

Raw TPM values