Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Rho GDP-dissociation inhibitor 1.

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 g8896 g8896.t1 TSS g8896.t1 33736466 33736466
chr_2 g8896 g8896.t1 isoform g8896.t1 33736533 33737252
chr_2 g8896 g8896.t1 exon g8896.t1.exon1 33736533 33737113
chr_2 g8896 g8896.t1 cds g8896.t1.CDS1 33736533 33737113
chr_2 g8896 g8896.t1 exon g8896.t1.exon2 33737237 33737252
chr_2 g8896 g8896.t1 cds g8896.t1.CDS2 33737237 33737252
chr_2 g8896 g8896.t1 TTS g8896.t1 33737734 33737734

Sequences

>g8896.t1 Gene=g8896 Length=597
ATGTCGACTGAAAATCAAGATAACTTTCCTGAAGAAGAGCATGAAAATTACCAACCACCG
CCCCAAAAGACGATTGAAGAGTTATTGTCATTAGATCAAGAAGATGAGAGTCTGCGAAAA
TATAAAGAAAAATTACTTGGTGCACAAGCTGATAAGATCATCATTGATGCAAATAATCCA
AAGAATGTTATTGTGAAGCGGTTAGCACTTGTAGTTGAAGGACGTGATGACATGGTTTTG
GATTTAAGCGGCGACCTCAGCATGCTCAAAAAACAAACTTTTACTATCAAGGAAGGAGTT
CAATATAAAATTCGAATTGAATTCTTTGTTCAACGTGAAATTGTCCATGGTTTAAAATAT
GTGCAAAAAACTTATCGATTGTCTGTCCCTGTTGATAAAATGACCCACATGGTTGGTTCT
TATCCACCAAAAGAAACAATACAGCATTTTTTGACACCATTCGAAGAAGCTCCCTCAGGA
ATGCTTGCAAGAGGAGAATACACAATATCAAGTCTATTTACTGATGATGATAAAAATGAA
CATTTAAAATGGGAATGGACACTGAAAGTTGAGAAAGATTGGAAGGACAAAAAATAA

>g8896.t1 Gene=g8896 Length=198
MSTENQDNFPEEEHENYQPPPQKTIEELLSLDQEDESLRKYKEKLLGAQADKIIIDANNP
KNVIVKRLALVVEGRDDMVLDLSGDLSMLKKQTFTIKEGVQYKIRIEFFVQREIVHGLKY
VQKTYRLSVPVDKMTHMVGSYPPKETIQHFLTPFEEAPSGMLARGEYTISSLFTDDDKNE
HLKWEWTLKVEKDWKDKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g8896.t1 Coils Coil Coil 31 51 -
11 g8896.t1 Gene3D G3DSA:2.70.50.30 Coagulation Factor XIII 13 196 5.4E-75
10 g8896.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 22 -
2 g8896.t1 PANTHER PTHR10980:SF8 RHO GDP-DISSOCIATION INHIBITOR 3 5 195 3.3E-66
3 g8896.t1 PANTHER PTHR10980 RHO GDP-DISSOCIATION INHIBITOR 5 195 3.3E-66
8 g8896.t1 PRINTS PR00492 RHO protein GDP dissociation inhibitor signature 53 68 4.9E-20
4 g8896.t1 PRINTS PR00492 RHO protein GDP dissociation inhibitor signature 114 130 4.9E-20
6 g8896.t1 PRINTS PR00492 RHO protein GDP dissociation inhibitor signature 131 146 4.9E-20
5 g8896.t1 PRINTS PR00492 RHO protein GDP dissociation inhibitor signature 147 159 4.9E-20
7 g8896.t1 PRINTS PR00492 RHO protein GDP dissociation inhibitor signature 173 190 4.9E-20
1 g8896.t1 Pfam PF02115 RHO protein GDP dissociation inhibitor 4 193 7.3E-67
9 g8896.t1 SUPERFAMILY SSF81296 E set domains 4 196 1.12E-69

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:0005094 Rho GDP-dissociation inhibitor activity MF
GO:0005737 cytoplasm CC

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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