General information for g15924.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as RalA-binding protein 1.
Parent gene
- The parent gene g15924 is located on chr_4: 7434873..7437120 (- 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_4 | g15924 | g15924.t1 | isoform | g15924.t1 | 7434873 | 7437120 |
| chr_4 | g15924 | g15924.t1 | exon | g15924.t1.exon1 | 7434873 | 7435157 |
| chr_4 | g15924 | g15924.t1 | cds | g15924.t1.CDS1 | 7434873 | 7435157 |
| chr_4 | g15924 | g15924.t1 | exon | g15924.t1.exon2 | 7435213 | 7435660 |
| chr_4 | g15924 | g15924.t1 | cds | g15924.t1.CDS2 | 7435213 | 7435660 |
| chr_4 | g15924 | g15924.t1 | exon | g15924.t1.exon3 | 7436039 | 7436603 |
| chr_4 | g15924 | g15924.t1 | cds | g15924.t1.CDS3 | 7436039 | 7436603 |
| chr_4 | g15924 | g15924.t1 | exon | g15924.t1.exon4 | 7436667 | 7437120 |
| chr_4 | g15924 | g15924.t1 | cds | g15924.t1.CDS4 | 7436667 | 7437120 |
| chr_4 | g15924 | g15924.t1 | TTS | g15924.t1 | 7436733 | 7436733 |
| chr_4 | g15924 | g15924.t1 | TSS | g15924.t1 | 7437205 | 7437205 |
Sequences
>g15924.t1 Gene=g15924 Length=1752
ATGGATGACAGTAGCAGTCAAGATGAACATGAATTTCCAGGATTATATGAAAAAGGCAAG
AAAAGTAATCAAGATGAATCAATAATTGAATCAAATTCAAATGACAGCTTTGAAAAGCAA
AAAAAATCATTAAAAAACAAAGCAGATAAAAAAGATCGACAATCTTATGAAACACTTGGT
GCAGATAGTGATGAAGAAACAACAGAAGGTGGAAGCAAACTTTTCCGAAGTCCATCAAAA
TCGAAAAAATCAAAAACATTTAAATTTCCGACATCATCAAAAAAAGAGAAGCGAGAAAAG
TCAAGAGATCCAGAGGTCAAGGACATTGTAGATTCGAAAGAGAAAAAAGGAAAAGATAAA
CATAAAGAAAAAGAACACAAAGAGAAAGAAAAGAAAGAGAAAAAAGATAAGAAAGATAAA
TCAAAAAGTGGAAATGAAGTTTTTGAACTTGGCGATATTCAGCCAATTTTTGGTGTTTCT
CTTGGACTTTCAGTTGAAAGATCTCGCTGTCATGATGGAGTCAAACTTCCACTTGTAGTT
CGTGATTGTATCGATTATTTACAAGAAAATTTAACATCCGAACAAATTTACAAAGTTGAA
GGCGTAAAAACTCGAGTTCAACATTTGAAAAAAATTTACAACAATCGTGAAGCTCGTAAT
GAAGAATTTGATGTTCCAACAGCTTCATCACTTTTAAAAACTTTCATTCAAGAACTTCCA
GAGCCAATTTTGACAACTGAATTGATTACAAGATTTGAAGAAGTTTCATCTTTACCTGAT
GTTACACAACAAGCTAAAGAACTCGAACAATTAATTGAACAACTGCCAAAATGCAATCAA
GTTTTACTCGCTTGGCTTTCGCGGCATTTTTCTGAAGTTATTAACAATGGAAAAGCAAAC
AAGATGAATGCACAAAATTTATCAGTTTTACTATCGCCGATTTTACAAATGTCACATCGA
TTGCTGATGATTATTTTGTGCCATGCTGAGACACTTTTTGCTGATGTTCAACTTCACAAA
TACATCCCACCGATAGCTGCAAGCACAAGTCCAAATTTACCCGAAACAGTTGAAGAAATT
CAATTTGAACTTCGAAAGCAAGAAAGTTTCCTTAATCAAATTCATTCTGAAATGAATGCT
GGTTTTGTAACAAAGAAACGTGAAGAAGATTTATGGGAAACACAAAGAATCATCACACAA
TTGAAAAGAAAATTGAGAACTTTTGAGAAAAAACATGATTCAATGCAAAAAAGTATGGAT
GCAGATGCAATTGAGGAAACCATAGATTTCACTTTAAGAAAACCTGAAAATGATGAAAAT
CCTGTAAGTGGTGATGGAACTGAAGATTCAAAAGAAACCAGTGATGAAAATAGTGACAAA
ATTTATATGATGGACAATGGAATGATTATGTTACCTAAAGATCATCCTGATTATGCAATG
CTTATTAAATTACAGCTTGAAAATCAGGAACTAATGAATTGGAAACAACAATTGCAATCA
AAAATCTCTCTAGAACGTGCTGAATGTGTTTGTTTAAAAACAATTCTTGATAATCAACAA
CCACCTGTTGCTAATACCAATGAAAATCAAAATATCGATGAATCTGAATATGAAAAACTC
ATTGAACATTACATGAAAGAAAATTCATTGCTTGAACAAAAAAGATTGTTACTTGCAAAG
GAAATTTTTGATGAAAATTTGTCACTTATTCAACTTCAAGTTGAACTCGCCATGAAACAA
TTTCTGCATTGA
>g15924.t1 Gene=g15924 Length=583
MDDSSSQDEHEFPGLYEKGKKSNQDESIIESNSNDSFEKQKKSLKNKADKKDRQSYETLG
ADSDEETTEGGSKLFRSPSKSKKSKTFKFPTSSKKEKREKSRDPEVKDIVDSKEKKGKDK
HKEKEHKEKEKKEKKDKKDKSKSGNEVFELGDIQPIFGVSLGLSVERSRCHDGVKLPLVV
RDCIDYLQENLTSEQIYKVEGVKTRVQHLKKIYNNREARNEEFDVPTASSLLKTFIQELP
EPILTTELITRFEEVSSLPDVTQQAKELEQLIEQLPKCNQVLLAWLSRHFSEVINNGKAN
KMNAQNLSVLLSPILQMSHRLLMIILCHAETLFADVQLHKYIPPIAASTSPNLPETVEEI
QFELRKQESFLNQIHSEMNAGFVTKKREEDLWETQRIITQLKRKLRTFEKKHDSMQKSMD
ADAIEETIDFTLRKPENDENPVSGDGTEDSKETSDENSDKIYMMDNGMIMLPKDHPDYAM
LIKLQLENQELMNWKQQLQSKISLERAECVCLKTILDNQQPPVANTNENQNIDESEYEKL
IEHYMKENSLLEQKRLLLAKEIFDENLSLIQLQVELAMKQFLH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15924.t1 | Coils | Coil | Coil | 34 | 54 | - |
| 9 | g15924.t1 | Coils | Coil | Coil | 120 | 140 | - |
| 8 | g15924.t1 | Coils | Coil | Coil | 398 | 418 | - |
| 6 | g15924.t1 | Coils | Coil | Coil | 534 | 554 | - |
| 5 | g15924.t1 | Gene3D | G3DSA:1.10.555.10 | - | 150 | 345 | 1.8E-50 |
| 4 | g15924.t1 | Gene3D | G3DSA:1.20.58.90 | - | 346 | 407 | 2.8E-26 |
| 12 | g15924.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 143 | - |
| 11 | g15924.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 7 | 25 | - |
| 15 | g15924.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 35 | 71 | - |
| 14 | g15924.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 89 | 143 | - |
| 13 | g15924.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 431 | 459 | - |
| 2 | g15924.t1 | PANTHER | PTHR12783 | RALA BINDING PROTEIN 1 RALBP1 | 3 | 580 | 1.3E-123 |
| 1 | g15924.t1 | Pfam | PF00620 | RhoGAP domain | 177 | 316 | 5.5E-35 |
| 16 | g15924.t1 | ProSiteProfiles | PS50238 | Rho GTPase-activating proteins domain profile. | 159 | 354 | 33.352 |
| 10 | g15924.t1 | SMART | SM00324 | RhoGAP_3 | 174 | 350 | 7.2E-42 |
| 3 | g15924.t1 | SUPERFAMILY | SSF48350 | GTPase activation domain, GAP | 154 | 333 | 1.26E-39 |
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:0031267 | small GTPase binding | MF |
| GO:0007165 | signal transduction | BP |
| GO:0007264 | small GTPase mediated signal transduction | BP |
| GO:0005096 | GTPase activator activity | MF |
KEGG
Orthology
- This transcript has been annotated with K08773 (RalA-binding protein 1)
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.
