Gene loci information

Transcript annotation

  • This transcript has been annotated as Ras-like protein 2.

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_1 g11648 g11648.t1 TSS g11648.t1 17614254 17614254
chr_1 g11648 g11648.t1 isoform g11648.t1 17614363 17619218
chr_1 g11648 g11648.t1 exon g11648.t1.exon1 17614363 17614461
chr_1 g11648 g11648.t1 cds g11648.t1.CDS1 17614363 17614461
chr_1 g11648 g11648.t1 exon g11648.t1.exon2 17614812 17614845
chr_1 g11648 g11648.t1 cds g11648.t1.CDS2 17614812 17614845
chr_1 g11648 g11648.t1 exon g11648.t1.exon3 17614919 17614998
chr_1 g11648 g11648.t1 cds g11648.t1.CDS3 17614919 17614998
chr_1 g11648 g11648.t1 exon g11648.t1.exon4 17618780 17619035
chr_1 g11648 g11648.t1 cds g11648.t1.CDS4 17618780 17619035
chr_1 g11648 g11648.t1 exon g11648.t1.exon5 17619091 17619218
chr_1 g11648 g11648.t1 cds g11648.t1.CDS5 17619091 17619218
chr_1 g11648 g11648.t1 TTS g11648.t1 17620077 17620077

Sequences

>g11648.t1 Gene=g11648 Length=597
ATGTCAAAGAATAATCAAACAAGTGTGCAAACTTATAAACTCGTAGTTGTTGGCAGTGGT
GGTGTCGGAAAATCCTGTATTACTATTCAATTCATTCAAAGCTACTTTTGTAGTGACTAT
GATCCGACTATAGAGGATAGTTATACGAAGAGACTTGTAATTGATGAAGTTGTAGCAAAG
CTTGATATTCTTGATACAGCAGGCCAAGAGGAGTTTTCTGCAATGCGTGAACAATATATG
AGATCGGGTGAAGGATTTCTTCTAGTATTCAGTGTCACAGATTATGCAAGTTTCGAAGAG
ATTTATAAATTTCATCGACAAATTTTACGTGTGAAAGATCGTGATGAATTTCCTATGCTT
ATGATTGGTAACAAGTCAGATTTAGAAGCACAACGAGTTGTTTCTATTGATAAAGCACAA
GAACTTAGTCGTCAACTTAAAATTCCATATCTTGAATGTAGTGCAAAAGTGAGAATCAAT
GTTGATCAAGCATTCATCGAACTTGTGCGTATTGTTAGAAGATTTCAAGAATCTGAACGG
CCAGTTATCAATTCAACAAAAGGAAAACCTAAAAATTCCAAATGCTGTCTATTATAA

>g11648.t1 Gene=g11648 Length=198
MSKNNQTSVQTYKLVVVGSGGVGKSCITIQFIQSYFCSDYDPTIEDSYTKRLVIDEVVAK
LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDYASFEEIYKFHRQILRVKDRDEFPML
MIGNKSDLEAQRVVSIDKAQELSRQLKIPYLECSAKVRINVDQAFIELVRIVRRFQESER
PVINSTKGKPKNSKCCLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g11648.t1 Gene3D G3DSA:3.40.50.300 - 9 178 0.0000
2 g11648.t1 PANTHER PTHR24070 RAS, DI-RAS, AND RHEB FAMILY MEMBERS OF SMALL GTPASE SUPERFAMILY 7 196 0.0000
3 g11648.t1 PANTHER PTHR24070:SF245 RAS-RELATED PROTEIN R-RAS 7 196 0.0000
4 g11648.t1 PRINTS PR00449 Transforming protein P21 ras signature 12 33 0.0000
8 g11648.t1 PRINTS PR00449 Transforming protein P21 ras signature 35 51 0.0000
7 g11648.t1 PRINTS PR00449 Transforming protein P21 ras signature 52 74 0.0000
6 g11648.t1 PRINTS PR00449 Transforming protein P21 ras signature 115 128 0.0000
5 g11648.t1 PRINTS PR00449 Transforming protein P21 ras signature 150 172 0.0000
1 g11648.t1 Pfam PF00071 Ras family 13 172 0.0000
15 g11648.t1 ProSiteProfiles PS51421 small GTPase Ras family profile. 5 198 42.1800
11 g11648.t1 SMART SM00173 ras_sub_4 9 175 0.0000
12 g11648.t1 SMART SM00175 rab_sub_5 12 174 0.0000
14 g11648.t1 SMART SM00174 rho_sub_3 14 175 0.0000
13 g11648.t1 SMART SM00176 ran_sub_2 17 197 0.0038
9 g11648.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 10 178 0.0000
16 g11648.t1 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 10 165 0.0000

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

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.

Raw TPM values