Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Ras-related protein Rap-2a.

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 g3526 g3526.t5 TSS g3526.t5 26197383 26197383
chr_3 g3526 g3526.t5 isoform g3526.t5 26197548 26201236
chr_3 g3526 g3526.t5 exon g3526.t5.exon1 26197548 26197588
chr_3 g3526 g3526.t5 exon g3526.t5.exon2 26200298 26200527
chr_3 g3526 g3526.t5 cds g3526.t5.CDS1 26200485 26200527
chr_3 g3526 g3526.t5 exon g3526.t5.exon3 26200607 26200698
chr_3 g3526 g3526.t5 cds g3526.t5.CDS2 26200607 26200698
chr_3 g3526 g3526.t5 exon g3526.t5.exon4 26200771 26201236
chr_3 g3526 g3526.t5 cds g3526.t5.CDS3 26200771 26201037
chr_3 g3526 g3526.t5 TTS g3526.t5 26201498 26201498

Sequences

>g3526.t5 Gene=g3526 Length=829
ACAACAAGAAAAAAAATATGAAATTATAAAAAGAGAATTGAATGAAAAAAATCTTTTGTG
AAACAATTGAACGAGTGAAAAATTGACAACCTTTTTCAATCAAATCACTATTTTTTGTGT
GTTTGTGAGAGAAAAGAAGCAGTAATAATTTTTTGTACATTGCAAAAGATTGTTTTGCAT
AACACAACTTAGTGAAATAATCCTAAACCCGCCCGTACCCAAAGAACGATGCGTGAATTC
AAAGTTGTTGTTCTTGGCTCAGGTGGCGTAGGAAAATCGGCCTTAACAGTGCAGTTTGTT
TCAGGATGTTTCATTGAAAAATATGACCCAACAGTGGAAGATTTTTATAGGAAAGAAATT
GAAGTCGATAATTCACCATGCGTCTTGGAAATTCTTGATACGGCGGGAACTGAACAGTTT
GCCTCGATGCGCGATCTCTATATTAAAAATGGTCACGGATTTATCGTTATGTATTCACTC
ACAAATCACCAGACGTTTCAAGATATTACAACTATGCGAAATGTCATTAGCCGAGTAAAG
GGAGGTCAACCGACTCCAATTTTATTAGTTGCTAATAAACTTGATTTAGAATACCAAAGA
GAAGTTTCCACTGAAGAAGGTACTGATTAATTTTATGCAATGATATATTAATGTTAATAT
TTAAAAATATTTTCTAGGACATGCACTTGCAGAGATGTGGGGTTGTCCATTTATTGAAGC
TTCTGCCAAAAGTCGTATCAATGTGAATGAAGTGTTTGCGATAATAGTTCGTGAGATGAA
TATGATGAGCGAAAAGCGACAGAAAAAATCATTTTGCTGTTGCTTATAG

>g3526.t5 Gene=g3526 Length=133
MREFKVVVLGSGGVGKSALTVQFVSGCFIEKYDPTVEDFYRKEIEVDNSPCVLEILDTAG
TEQFASMRDLYIKNGHGFIVMYSLTNHQTFQDITTMRNVISRVKGGQPTPILLVANKLDL
EYQREVSTEEGTD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g3526.t5 Gene3D G3DSA:3.40.50.300 - 1 133 0.0000000
2 g3526.t5 PANTHER PTHR24070 RAS, DI-RAS, AND RHEB FAMILY MEMBERS OF SMALL GTPASE SUPERFAMILY 1 132 0.0000000
3 g3526.t5 PANTHER PTHR24070:SF419 RAP2A, MEMBER OF RAS ONCOGENE FAMILY A 1 132 0.0000000
7 g3526.t5 PRINTS PR00449 Transforming protein P21 ras signature 4 25 0.0000000
4 g3526.t5 PRINTS PR00449 Transforming protein P21 ras signature 27 43 0.0000000
5 g3526.t5 PRINTS PR00449 Transforming protein P21 ras signature 44 66 0.0000000
6 g3526.t5 PRINTS PR00449 Transforming protein P21 ras signature 107 120 0.0000000
1 g3526.t5 Pfam PF00071 Ras family 5 132 0.0000000
13 g3526.t5 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile. 1 27 6.0000000
14 g3526.t5 ProSiteProfiles PS51421 small GTPase Ras family profile. 1 133 29.5780000
10 g3526.t5 SMART SM00173 ras_sub_4 1 133 0.0000000
11 g3526.t5 SMART SM00175 rab_sub_5 4 133 0.0000000
12 g3526.t5 SMART SM00174 rho_sub_3 6 133 0.0000064
8 g3526.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 131 0.0000000
15 g3526.t5 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 1 130 0.0000000

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:0016020 membrane CC
GO:0007165 signal transduction BP
GO:0005525 GTP binding MF
GO:0003924 GTPase activity 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