Gene loci information

Transcript annotation

  • This transcript has been annotated as Cdc42-like protein.

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 g2677 g2677.t5 isoform g2677.t5 19683127 19685789
chr_3 g2677 g2677.t5 exon g2677.t5.exon1 19683127 19683191
chr_3 g2677 g2677.t5 TSS g2677.t5 19683130 19683130
chr_3 g2677 g2677.t5 exon g2677.t5.exon2 19684333 19684707
chr_3 g2677 g2677.t5 cds g2677.t5.CDS1 19684530 19684707
chr_3 g2677 g2677.t5 exon g2677.t5.exon3 19684772 19684881
chr_3 g2677 g2677.t5 cds g2677.t5.CDS2 19684772 19684881
chr_3 g2677 g2677.t5 exon g2677.t5.exon4 19684943 19685146
chr_3 g2677 g2677.t5 cds g2677.t5.CDS3 19684943 19685146
chr_3 g2677 g2677.t5 exon g2677.t5.exon5 19685225 19685789
chr_3 g2677 g2677.t5 cds g2677.t5.CDS4 19685225 19685314
chr_3 g2677 g2677.t5 TTS g2677.t5 19685785 19685785

Sequences

>g2677.t5 Gene=g2677 Length=1319
CTGACACATATTTTTGGGAAAAAGCAACGAACAACACTTTAGAAAACATTTATAAATTTA
TATAGATGTTTAGTTTTTCTAATTTGTAAATTTTTTAAGAATTTCAATTTATGTATTAAT
TGAAGACAAAAAACATAAGTGCATAATTAATAAATTGTTAAAAAGGAAAAGAAAAGAGAT
ACCATCAACAGTTAAAAAATTCATCAATTTGAAAGCAAAAGAAACACCATATTAACATTA
CGAAGAGACTTCAAAGGCCAAAATGCAGACCATAAAATGTGTTGTTGTTGGTGATGGTGC
AGTCGGTAAAACTTGCCTTCTGATCTCATACACGACAAATAAATTTCCATCTGAATACGT
TCCAACTGTCTTTGACAACTATGCAGTGACAGTAATGATTGGAGGTGAACCTTACACGCT
AGGTCTTTTTGACACAGCTGGTCAGGAGGATTATGACCGATTGAGGCCATTGTCTTATCC
ACAAACAGATGTCTTTTTAGTATGCTTTTCAGTTGTCAGTCCCAGCTCCTTCGAAAATGT
TAAAGAAAAGTGGGTACCAGAAATCACTCATCATTGTCAAAAAACACCATTCTTGTTAGT
CGGCACTCAAATCGATTTACGCGATGAAAATGGTACATTAGAGAAGCTGGCAAAGAATAA
ACAGAAACCGATAACTTTGGAGCAGGGTGAAAAATTGGCAAAGGAATTGAAGGCTGTCAA
ATATGTAGAATGTTCAGCATTGACTCAGGTTAGAAAAGGGCTGAAGAATGTATTTGATGA
AGCTATATTAGCAGCATTGGAACCGCCAGAACCAGCAAAAAAGAAGAGATGCAAGATCTT
GTAGAAAGGGAAAGGCCTCAACAATCAAAAACCATTTCGTATCCTAAAATATTCGATATG
AAAATTTATTTTTCGGGAGCTCTTCGACAACTTTTTTTTCTAAAGAAAATAGAAACCAAT
CGCAGAAAGAAAATTTAATATTTTTGTTTATTTTACTATCGTACGCAAGGCATTTATTAA
AGAACAAATTTTCTGACTGTCAGAGAATTGCATGTTTCTTCATTTTATTTTCTTTCTGTT
TTATTCTAATACAATATAATCAATATTCAAAAGTGAGCAGTATGCATAAATATACACATA
TTTTTCAATTACTTTAAAAGAAGAAGAAAGTTTTGTTTCCTATTCTGGAACTAATGGGAA
CTTTTTTCATGGATCCAGGCAAAAATTATCATACATTAAAAATATTGTTAGGAACTATAT
TAAAATATAATTGAAGAGAAATAATTTTTAAAAAACAAAGGAAAAAAGTGGCAACAAAA

>g2677.t5 Gene=g2677 Length=193
MQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAG
QEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCQKTPFLLVGTQIDLR
DENGTLEKLAKNKQKPITLEQGEKLAKELKAVKYVECSALTQVRKGLKNVFDEAILAALE
PPEPAKKKRCKIL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g2677.t5 CDD cd01874 Cdc42 3 179 0.00
9 g2677.t5 Gene3D G3DSA:3.40.50.300 - 1 184 0.00
2 g2677.t5 PANTHER PTHR24072:SF262 CDC42L PROTEIN 1 193 0.00
3 g2677.t5 PANTHER PTHR24072 RHO FAMILY GTPASE 1 193 0.00
7 g2677.t5 PRINTS PR00449 Transforming protein P21 ras signature 4 25 0.00
4 g2677.t5 PRINTS PR00449 Transforming protein P21 ras signature 27 43 0.00
6 g2677.t5 PRINTS PR00449 Transforming protein P21 ras signature 44 66 0.00
5 g2677.t5 PRINTS PR00449 Transforming protein P21 ras signature 106 119 0.00
1 g2677.t5 Pfam PF00071 Ras family 5 176 0.00
15 g2677.t5 ProSiteProfiles PS51420 small GTPase Rho family profile. 1 178 27.45
11 g2677.t5 SMART SM00173 ras_sub_4 1 181 0.00
12 g2677.t5 SMART SM00175 rab_sub_5 4 181 0.00
13 g2677.t5 SMART SM00174 rho_sub_3 6 181 0.00
8 g2677.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 3 175 0.00
14 g2677.t5 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 1 157 0.00

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:0007264 small GTPase mediated 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