General information for g3526.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ras-related protein Rap-2a.
Parent gene
- The parent gene g3526 is located on chr_3: 26201094..26202337 (+ strand)
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.t9 | TSS | g3526.t9 | 26200274 | 26200274 |
| chr_3 | g3526 | g3526.t9 | isoform | g3526.t9 | 26200485 | 26202337 |
| chr_3 | g3526 | g3526.t9 | exon | g3526.t9.exon1 | 26200485 | 26200698 |
| chr_3 | g3526 | g3526.t9 | exon | g3526.t9.exon2 | 26200771 | 26201026 |
| chr_3 | g3526 | g3526.t9 | cds | g3526.t9.CDS1 | 26200834 | 26201026 |
| chr_3 | g3526 | g3526.t9 | exon | g3526.t9.exon3 | 26201085 | 26202337 |
| chr_3 | g3526 | g3526.t9 | cds | g3526.t9.CDS2 | 26201085 | 26201236 |
| chr_3 | g3526 | g3526.t9 | TTS | g3526.t9 | 26202331 | 26202331 |
Sequences
>g3526.t9 Gene=g3526 Length=1723
ATGCGTGAATTCAAAGTTGTTGTTCTTGGCTCAGGTGGCGTAGGTGAGTTGCATATAAAA
TGTTTTTTATTACTACCTATTTAGATGCTAATAAATAATCTTTTTTATTTACTTTCTTTC
AGGAAAATCGGCCTTAACAGTGCAGTTTGTTTCAGGATGTTTCATTGAAAAATATGACCC
AACAGTGGAAGATTTTTATAGGAAAGAAATTGAAGTCGATAATTCACCATGCGTCTTGGA
AATTCTTGATACGGCGGGAACTGAACAGTTTGCCTCGATGCGCGATCTCTATATTAAAAA
TGGTCACGGATTTATCGTTATGTATTCACTCACAAATCACCAGACGTTTCAAGATATTAC
AACTATGCGAAATGTCATTAGCCGAGTAAAGGGAGGTCAACCGACTCCAATTTTATTAGT
TGCTAATAAACTTGATTTAGAATACCAAAGAGAAGTTTCCACTGAAGAAGGACATGCACT
TGCAGAGATGTGGGGTTGTCCATTTATTGAAGCTTCTGCCAAAAGTCGTATCAATGTGAA
TGAAGTGTTTGCGATAATAGTTCGTGAGATGAATATGATGAGCGAAAAGCGACAGAAAAA
ATCATTTTGCTGTTGCTTATAGGGAAACGTTTCTCAATAAGCATTCATTTATAAAAAAAT
ATATCACTCAGTTTTTTCTCTCACTCTCTTTTTCTCTATTCTATGAGAATTCATAGAAAA
GTTAAAGAGTTTTTCCGGATTTCAACTAGTTATCTGTATCATACACCATACACACAAACA
TACACATAAATTTAAAAATGAAAACAATTCGCCATCAATTTTATTACTTATTTTTAAGTA
TAAATAAAATTTATACAATTATGTATTTTTAACTTACTTCTACTTATATTTTAGAATGAA
AATATCTCTTTTCGTTTCTTCATTATTAATGATAATGGCCATAAATTTTATTTCTAATTA
TTTAAGATCATGTGACTTTAAATTTTGTGTTTTTAGCTTTTCTATCGCATTTAGCTATCA
CATGTAATTGCTAATCCTAATTGTTTCCATATTCTAGGAGAAAAACCATATATTGAATGA
GCTAGAGTGAAGATCTCAGAAAATTCAAATATCTTACAATTACAATTACGATAGTCAAGA
AACTTTCTCTAATAAAAAAAATTAAAAATTCACATTTAAGCTCAATAAATATCGTGTCAA
GCTTACATCATTTGAAATTAAATGTTCAAGTAGTTTTCCGAAAAAAATAATGATTCTCCA
ATTGATGGAAATCATAAAATTTAATTTTTTCTTTGCATTTTTTCATCATTTCGTGCCGAA
ATGTGAAGCGCAATTATAATTAAACTATAATCAAAAACGAGAAAGAAATAATTTGATTGC
TTTCCATTTCACTCACATAAGACCCGAATAAATTTCACTTCTCATTTTCTATTTCCCGAA
AAAAAAGAAGAAAAATATTATGTGACGACTGCCTATAACCATGCTTTGATGTGTAGCAAA
TAAGTAGTCAGTCGACGGTGAGAGAAGAAAAATTATTGAACAATAACCATTAATTAATAG
ATAATTTATTATTTGTAAGAAATGAAATATGCAGATTTAAGAGAGAGAATGAATGATTGC
TACAAGTTGTAAAATAATGAAAGTAAAACAAAATTCAGTCAATTTATACCACAGAAGAAA
GAAAGAATTGTGAAAAATAAAGTAGCAGTAATTTCATGAAAAA
>g3526.t9 Gene=g3526 Length=114
MRDLYIKNGHGFIVMYSLTNHQTFQDITTMRNVISRVKGGQPTPILLVANKLDLEYQREV
STEEGHALAEMWGCPFIEASAKSRINVNEVFAIIVREMNMMSEKRQKKSFCCCL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3526.t9 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 107 | 0.0000 |
| 2 | g3526.t9 | PANTHER | PTHR24070 | RAS, DI-RAS, AND RHEB FAMILY MEMBERS OF SMALL GTPASE SUPERFAMILY | 1 | 112 | 0.0000 |
| 3 | g3526.t9 | PANTHER | PTHR24070:SF221 | RAS-RELATED PROTEIN RAP-2A | 1 | 112 | 0.0000 |
| 5 | g3526.t9 | PRINTS | PR00449 | Transforming protein P21 ras signature | 41 | 54 | 0.0000 |
| 4 | g3526.t9 | PRINTS | PR00449 | Transforming protein P21 ras signature | 76 | 98 | 0.0000 |
| 1 | g3526.t9 | Pfam | PF00071 | Ras family | 1 | 98 | 0.0000 |
| 11 | g3526.t9 | ProSiteProfiles | PS51421 | small GTPase Ras family profile. | 1 | 114 | 22.4210 |
| 8 | g3526.t9 | SMART | SM00173 | ras_sub_4 | 1 | 101 | 0.0000 |
| 9 | g3526.t9 | SMART | SM00175 | rab_sub_5 | 1 | 101 | 0.0000 |
| 10 | g3526.t9 | SMART | SM00174 | rho_sub_3 | 3 | 99 | 0.0078 |
| 6 | g3526.t9 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 100 | 0.0000 |
| 12 | g3526.t9 | TIGRFAM | TIGR00231 | small_GTP: small GTP-binding protein domain | 1 | 94 | 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
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.
