General information for g3660.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3660 is located on chr_3: 27251963..27253122 (- 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 | g3660 | g3660.t2 | TTS | g3660.t2 | 27251733 | 27251733 |
| chr_3 | g3660 | g3660.t2 | isoform | g3660.t2 | 27251963 | 27253122 |
| chr_3 | g3660 | g3660.t2 | exon | g3660.t2.exon1 | 27251963 | 27252177 |
| chr_3 | g3660 | g3660.t2 | cds | g3660.t2.CDS1 | 27251965 | 27252177 |
| chr_3 | g3660 | g3660.t2 | exon | g3660.t2.exon2 | 27252232 | 27252579 |
| chr_3 | g3660 | g3660.t2 | cds | g3660.t2.CDS2 | 27252232 | 27252579 |
| chr_3 | g3660 | g3660.t2 | exon | g3660.t2.exon3 | 27252904 | 27253122 |
| chr_3 | g3660 | g3660.t2 | cds | g3660.t2.CDS3 | 27252904 | 27253122 |
| chr_3 | g3660 | g3660.t2 | TSS | g3660.t2 | 27253221 | 27253221 |
Sequences
>g3660.t2 Gene=g3660 Length=782
ATGCGAATAAAAAAAGAACGTACGAAGAAAGTTAAAGAACCACATAGATATACTTTCTGG
AAACTCGGATTTAATAATAAACTTGTTGATAAAAGGTTATATAGAAAAACTCATTTCAAA
AAAATAAACAATTCGATTCACCATTCAAACGATTTTACTGAAATTGCTCAAATCCAAATG
TCTGATGATGGACAAGATAAGAATGAAACAAAAACTAATATTTTTAATAGTACAATAAAT
AGTACTTCAACGGAGACGACTTTGGAATATTCAGATCAACATGTCCAACTATTAAAACAA
ATTGATATTTTGTCTTTTGAATCAGATGATGAAATATTAAGTGAAAACAATATTGATGAT
GATTATGAAGCATTTAGTTCACTATCAAATTTAATACTACCTATTAACATTACACAACTT
TCAGTTTTTGTCAATTATACGATGATCCATTCAATATCAGAACCGATTTTGTTCTATTTA
ATCTCTGATTTGTATAAAAAAGGAAGTGTAAAAGACATGAAGAAATGGGCATATGAAATT
TTTTCATGTTTTATTCAAGCATCTGCACCACTTAGATTTTATTCATCAAACTTCAATGAG
TCAATAGTTGGAGATATCGAATCAAAATTAATGCAAATTGATGCCTATAAACCAGTGAAC
ATAATTAGTTCATCATTTGACTTCGAAATATTACGTTTGCTTCGTGAGATTTTTCAAAAA
TCTAGATTTGAAGCACAACAACAGATTACAAAACAACTTCAAGATTTTCAAACTAAACGA
AG
>g3660.t2 Gene=g3660 Length=260
MRIKKERTKKVKEPHRYTFWKLGFNNKLVDKRLYRKTHFKKINNSIHHSNDFTEIAQIQM
SDDGQDKNETKTNIFNSTINSTSTETTLEYSDQHVQLLKQIDILSFESDDEILSENNIDD
DYEAFSSLSNLILPINITQLSVFVNYTMIHSISEPILFYLISDLYKKGSVKDMKKWAYEI
FSCFIQASAPLRFYSSNFNESIVGDIESKLMQIDAYKPVNIISSSFDFEILRLLREIFQK
SRFEAQQQITKQLQDFQTKR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3660.t2 | Gene3D | G3DSA:1.20.58.1850 | - | 122 | 260 | 0 |
| 2 | g3660.t2 | PANTHER | PTHR45872:SF2 | RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 2, ISOFORM D | 38 | 260 | 0 |
| 3 | g3660.t2 | PANTHER | PTHR45872 | RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 2, ISOFORM D | 38 | 260 | 0 |
| 1 | g3660.t2 | Pfam | PF09128 | Regulator of G protein signalling-like domain | 124 | 260 | 0 |
| 4 | g3660.t2 | SUPERFAMILY | SSF48097 | Regulator of G-protein signaling, RGS | 136 | 260 | 0 |
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:0005085 | guanyl-nucleotide exchange factor activity | MF |
| GO:0005737 | cytoplasm | CC |
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