General information for g6988.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Rho-related BTB domain-containing protein 1.
Parent gene
- The parent gene g6988 is located on chr_2: 20367607..20369834 (- 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_2 | g6988 | g6988.t1 | isoform | g6988.t1 | 20367607 | 20369834 |
| chr_2 | g6988 | g6988.t1 | exon | g6988.t1.exon1 | 20367607 | 20367690 |
| chr_2 | g6988 | g6988.t1 | cds | g6988.t1.CDS1 | 20367607 | 20367690 |
| chr_2 | g6988 | g6988.t1 | exon | g6988.t1.exon2 | 20368301 | 20368438 |
| chr_2 | g6988 | g6988.t1 | cds | g6988.t1.CDS2 | 20368301 | 20368438 |
| chr_2 | g6988 | g6988.t1 | exon | g6988.t1.exon3 | 20368505 | 20368625 |
| chr_2 | g6988 | g6988.t1 | cds | g6988.t1.CDS3 | 20368505 | 20368625 |
| chr_2 | g6988 | g6988.t1 | exon | g6988.t1.exon4 | 20368681 | 20368830 |
| chr_2 | g6988 | g6988.t1 | cds | g6988.t1.CDS4 | 20368681 | 20368830 |
| chr_2 | g6988 | g6988.t1 | exon | g6988.t1.exon5 | 20368891 | 20368900 |
| chr_2 | g6988 | g6988.t1 | cds | g6988.t1.CDS5 | 20368891 | 20368900 |
| chr_2 | g6988 | g6988.t1 | exon | g6988.t1.exon6 | 20368993 | 20369377 |
| chr_2 | g6988 | g6988.t1 | cds | g6988.t1.CDS6 | 20368993 | 20369377 |
| chr_2 | g6988 | g6988.t1 | exon | g6988.t1.exon7 | 20369451 | 20369834 |
| chr_2 | g6988 | g6988.t1 | cds | g6988.t1.CDS7 | 20369451 | 20369834 |
| chr_2 | g6988 | g6988.t1 | TSS | g6988.t1 | NA | NA |
| chr_2 | g6988 | g6988.t1 | TTS | g6988.t1 | NA | NA |
Sequences
>g6988.t1 Gene=g6988 Length=1272
ATGGATAACGAGCAACCTCATCAAGAGTTAGTGAAATGCGTTCTTGTAGGCGATACAGCT
GTGGGAAAGACTCGATTAATTTGCGCGCGAGCATGCAACAAACATGTGTCACTCTCACAA
TTGTTATCGACACACGTTCCTACTGTATGGGCAATAGATCAATATCGAATATATAAAGAC
GTCTTAGAACGCTCTTGGGAAGTAGTTGATTCTGTCAATGTTTCTTTGCGTCTTTGGGAT
ACATTTGGAGATCATGAAAAAGATCGAAGATTTGCTTATGGTCGTTCTGATGTAGTTCTT
TTGTGCTTTTCTATTACAAATCGCATTTCACTAAGAAATTGTAGATTGATGTGGTACCCT
GAGATTAGAAGATTCTGTCCACAAGTACCAGTTATTCTGGTTGGTTGTAAGAATGACTTA
CGGTATATGTATCGTGATGAAACTTATTTATCTTATTTTGGCGATCGTTCACCATTTGTA
CGTGCTGCTAGAAAAAGTGATTTGGTTATGCCTGACGAAGCTCGTGCTGTGGCTAAAGAA
CTTGGAATTGCTTATTACGAGACAAGCGTTTTTACATATTTCGGTGTAAATGAAGTATTT
GAAAATGCAATTAGAGCTGCGCTCATCAATCGTCGCCGTGAACGATTTTGGATGACAAAT
TTAAAGCGAGTTCAACGACCAACATTACAAATACCATTTAGACCTCCTAAACCATCACCA
CCCGAGGTTTCGATTCTTACAGGAATTATTCAAAAGACATGCTTAATATCTTTTCATAGA
TTATTAAATATGGACCTGACAGTCGATATTGGTGCAAGAAGTTCGAGTGAGTCTAGTATG
GTGAGTTCTACTTTTGGTGAGTCAATGACGGCAGATTTTAATGATGATACAGAACTGCTT
ATAAGAGCTGATCAAAAACCACAAATGAGAATGTTTGAACAATTAAAACGACGATCAAGT
TATCATGCACTGCCAACTATTGGTGAGCCAAAAAAAGACGTTTATCGTGATTTGCATCAT
CCAGTTTTCCAAAATATTAGAATCGTTCAAGTTGATGAAGAACGTAATAGTATTATTCAA
TTACAAACAATTGTTAATTTAAGTAAAGTGATAACTGCAAAACATTGCAACAATGTCTTA
TGTTTTATTTATACGGGTACTATTGATAAAGAGTATCTTGAATTAAAGGAAGTGCGTCAA
GCTGCTGAGTTTTTGGAATTACCACAGCTTGTAGTTTTACTGACAATACAACATCTAATG
AGAGTTTCATGA
>g6988.t1 Gene=g6988 Length=423
MDNEQPHQELVKCVLVGDTAVGKTRLICARACNKHVSLSQLLSTHVPTVWAIDQYRIYKD
VLERSWEVVDSVNVSLRLWDTFGDHEKDRRFAYGRSDVVLLCFSITNRISLRNCRLMWYP
EIRRFCPQVPVILVGCKNDLRYMYRDETYLSYFGDRSPFVRAARKSDLVMPDEARAVAKE
LGIAYYETSVFTYFGVNEVFENAIRAALINRRRERFWMTNLKRVQRPTLQIPFRPPKPSP
PEVSILTGIIQKTCLISFHRLLNMDLTVDIGARSSSESSMVSSTFGESMTADFNDDTELL
IRADQKPQMRMFEQLKRRSSYHALPTIGEPKKDVYRDLHHPVFQNIRIVQVDEERNSIIQ
LQTIVNLSKVITAKHCNNVLCFIYTGTIDKEYLELKEVRQAAEFLELPQLVVLLTIQHLM
RVS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g6988.t1 | CDD | cd01873 | RhoBTB | 9 | 207 | 0.0000000 |
| 10 | g6988.t1 | Gene3D | G3DSA:3.40.50.300 | - | 7 | 212 | 0.0000000 |
| 2 | g6988.t1 | PANTHER | PTHR24072:SF156 | RHO-RELATED BTB DOMAIN CONTAINING, ISOFORM B | 1 | 415 | 0.0000000 |
| 3 | g6988.t1 | PANTHER | PTHR24072 | RHO FAMILY GTPASE | 1 | 415 | 0.0000000 |
| 5 | g6988.t1 | PRINTS | PR00449 | Transforming protein P21 ras signature | 11 | 32 | 0.0000000 |
| 4 | g6988.t1 | PRINTS | PR00449 | Transforming protein P21 ras signature | 67 | 89 | 0.0000000 |
| 7 | g6988.t1 | PRINTS | PR00449 | Transforming protein P21 ras signature | 127 | 140 | 0.0000000 |
| 6 | g6988.t1 | PRINTS | PR00449 | Transforming protein P21 ras signature | 185 | 207 | 0.0000000 |
| 1 | g6988.t1 | Pfam | PF00071 | Ras family | 12 | 207 | 0.0000000 |
| 16 | g6988.t1 | ProSiteProfiles | PS51420 | small GTPase Rho family profile. | 4 | 207 | 18.5390000 |
| 12 | g6988.t1 | SMART | SM00173 | ras_sub_4 | 8 | 210 | 0.0000600 |
| 13 | g6988.t1 | SMART | SM00175 | rab_sub_5 | 11 | 210 | 0.0000011 |
| 14 | g6988.t1 | SMART | SM00174 | rho_sub_3 | 13 | 210 | 0.0000000 |
| 8 | g6988.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 9 | 213 | 0.0000000 |
| 9 | g6988.t1 | SUPERFAMILY | SSF54695 | POZ domain | 341 | 413 | 0.0000837 |
| 15 | g6988.t1 | TIGRFAM | TIGR00231 | small_GTP: small GTP-binding protein domain | 11 | 142 | 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:0007264 | small GTPase mediated 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. There were no conditions that were differentially expressed