General information for g2168.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative SLIT-ROBO Rho GTPase-activating protein 2.
Parent gene
- The parent gene g2168 is located on chr_3: 15764482..15773557 (+ 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 | g2168 | g2168.t6 | TSS | g2168.t6 | 15760627 | 15760627 |
| chr_3 | g2168 | g2168.t6 | isoform | g2168.t6 | 15760763 | 15768540 |
| chr_3 | g2168 | g2168.t6 | exon | g2168.t6.exon1 | 15760763 | 15760764 |
| chr_3 | g2168 | g2168.t6 | exon | g2168.t6.exon2 | 15763930 | 15764557 |
| chr_3 | g2168 | g2168.t6 | cds | g2168.t6.CDS1 | 15764482 | 15764557 |
| chr_3 | g2168 | g2168.t6 | exon | g2168.t6.exon3 | 15767809 | 15767902 |
| chr_3 | g2168 | g2168.t6 | cds | g2168.t6.CDS2 | 15767809 | 15767902 |
| chr_3 | g2168 | g2168.t6 | exon | g2168.t6.exon4 | 15768056 | 15768145 |
| chr_3 | g2168 | g2168.t6 | cds | g2168.t6.CDS3 | 15768056 | 15768145 |
| chr_3 | g2168 | g2168.t6 | exon | g2168.t6.exon5 | 15768219 | 15768540 |
| chr_3 | g2168 | g2168.t6 | cds | g2168.t6.CDS4 | 15768219 | 15768540 |
| chr_3 | g2168 | g2168.t6 | TTS | g2168.t6 | NA | NA |
Sequences
>g2168.t6 Gene=g2168 Length=1136
AATTGAAGCGAAACAGACAGTTTACTTTATTGAGCCGTATGGTTTTTATTATTATTTAAA
TAACAAGCACAAAAAAAGAGTGTATAGTAAACAAAACTAAACATACATACATACATATTC
TAAGTGAAGTCCATAAATACAAAAGACATGAGAAATCCATAAAAGCAGCAAAAAATTATT
AAATGTGTATTTAAGAAACCAGTTTTCATAGCATCATTGCTACAGTTGAAAGGAATAAGA
AGAAGAAGGAAGAGGGCAAACAGATTTTTTGTGCATTATAGTGAACTTCAATATATACAT
TTTAATATATACACTAAACCAAAGATTATTTTATTTACTCTTCAATAAATCGACGAGCGC
GAAAGAGAGGAGCAAATATGTGAAGAAATTTTTATCTTAAGCACACTTTAGCCTGTTTTA
TAATATGAAGAAGATGTGAAAATTGCCAAAATATCCACTAATTTCTTAATTTTAAGTGTT
TAAAAAAAACGATCAAGAGGACGATCTGTATAATTTTAAGTGAAGTGAATTTTGAAGAGT
AAAATATAATCGAAATGTTTCAATGTATAATCCAGCAACGTAACGGTTGGATTCATGTGC
CAAGTCAAGAATTTCGCGACGTATTTCCAGACATTCGTCTGCAACTCAATGAGCAACTAC
GATGCCTAGACATTCGAGTAGAATCACAGATCTCATTAATTCAAGAACTACAGGAATTCT
ACAGACGACGAGGAGAACTTGAATTGGACTATAGCAAAAACTTGGAAAAATTGGCAAAAA
ATTTACAATTGCGACATAAAGAACAAAAACAAAAACGCGAGCAATGGCCAATGTTTTCAA
CACATGCTTGCTGGCAACAATTGATTCAACAGACAAAAAGTTTGGCACGTGATCATGCAA
CATTAGCTGATATATATTCTACTCAATTAGTACAGCGTCTTCAATCAGTTTATGATGATT
GTCAACGTATTTATAAGAGATGTCGTGAAGTTGGCTACGAGATTCATGAGGAAATTCTTC
GTGTTCTACAGGAACTGCATACAACAATGAAAACTTATCATGGATATCAATTGGAATGTA
GAGAAGCCGAAAAGAAATTGCGTGCAGCCGAAGTGCAACGTGCGAAAATTCAACAA
>g2168.t6 Gene=g2168 Length=194
MFQCIIQQRNGWIHVPSQEFRDVFPDIRLQLNEQLRCLDIRVESQISLIQELQEFYRRRG
ELELDYSKNLEKLAKNLQLRHKEQKQKREQWPMFSTHACWQQLIQQTKSLARDHATLADI
YSTQLVQRLQSVYDDCQRIYKRCREVGYEIHEEILRVLQELHTTMKTYHGYQLECREAEK
KLRAAEVQRAKIQQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2168.t6 | Coils | Coil | Coil | 67 | 87 | - |
| 8 | g2168.t6 | Coils | Coil | Coil | 168 | 194 | - |
| 6 | g2168.t6 | Gene3D | G3DSA:1.20.1270.60 | Arfaptin | 28 | 194 | 1.0E-35 |
| 2 | g2168.t6 | PANTHER | PTHR14166 | SLIT-ROBO RHO GTPASE ACTIVATING PROTEIN | 18 | 191 | 7.8E-70 |
| 3 | g2168.t6 | PANTHER | PTHR14166:SF17 | SLIT-ROBO GAP HOMOLOG | 18 | 191 | 7.8E-70 |
| 1 | g2168.t6 | Pfam | PF00611 | Fes/CIP4, and EFC/F-BAR homology domain | 34 | 116 | 2.3E-17 |
| 9 | g2168.t6 | ProSiteProfiles | PS51741 | F-BAR domain profile. | 18 | 194 | 19.511 |
| 5 | g2168.t6 | SMART | SM00055 | fch_2 | 25 | 121 | 3.3E-13 |
| 4 | g2168.t6 | SUPERFAMILY | SSF103657 | BAR/IMD domain-like | 26 | 187 | 1.15E-31 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
