General information for g1173.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Guanine nucleotide-binding protein-like 3-like protein.
Parent gene
- The parent gene g1173 is located on chr_3: 8485744..8487626 (- 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 | g1173 | g1173.t4 | isoform | g1173.t4 | 8485744 | 8487626 |
| chr_3 | g1173 | g1173.t4 | exon | g1173.t4.exon1 | 8485744 | 8487502 |
| chr_3 | g1173 | g1173.t4 | cds | g1173.t4.CDS1 | 8485744 | 8487225 |
| chr_3 | g1173 | g1173.t4 | exon | g1173.t4.exon2 | 8487605 | 8487626 |
| chr_3 | g1173 | g1173.t4 | TSS | g1173.t4 | 8487684 | 8487684 |
| chr_3 | g1173 | g1173.t4 | TTS | g1173.t4 | NA | NA |
Sequences
>g1173.t4 Gene=g1173 Length=1781
ATGTCTTTGAAAGGCTTAAAAAAAAATCAAGAAGAGTTCCAGCAGCTCGCAGATATAAAA
TTATCAAAAAGATTGCAGCTTCAAAACGCAAGAAGGAGAAAGAAGCAAAGAAATTACCCA
AAAAAAGTGCTAAACAAAAGCTTATTCAAATTCCAAATGTTTGTCCTTTCAAAGAAAAAA
TTCTCGAAGAAGTAGAAGCAGATAAAGCACGTCGTGAAGAAGAGAAGAGAGAAAGATTGG
AGAAATTAAAGTTGGAAAGACAAGAGGCAAAAAAGAATAAGCATACAACACTTGAATCAA
TGGTAAATGAAGCTAATCAACGAGCAGAAGGACATATTGAAAAGGAAGAAGGAGTTAATG
ATGGTTCTTATCAAAATCAACAGCGAACAAAAGAAAACTCACTCAAATCATATTTCAAAG
AGTTTAAAAAAGTTGTGGATGCTGCAGATGTTATTTTGGAAGTTTGTGATGCTCGTGATC
CTCTTGGAACTCGTTGCAGCGAAGTCACAACAATTATACGAGAATCACCCGGTCAAAAGA
AACATGTTTTGATTGTGAATAAAGCGGATTTAGTACCGAGAGAAAATCTAGATAAATGGA
TTAAATATTTGAGGAAATTCGGACCAGTTATTCCGTTCAAAGCAAGTACACAAGCACAGA
AAAATAATATTGGTCACAGACGATTTAATAAGAATAAACAACATAAAAATATTAATCAAT
TATCGACATGCATTGGTGCAGATTTACTTATGTCTCTTCTGGCAAACTATTGTCGCAATA
AGAATTTAAAAACTTCAATTCGAGTTGGCATAGTTGGATTACCAAATACGGGCAAGAGTT
CAATTATAAATTCACTTAAGAGACGAAAGGCATGTTTAGTTGGTGCTCAACCAGGAATAA
CTAAAGCAATGCAAGAAGTTGAAATTGATTCAAACATTAAACTCATTGATAGTCCAGGAA
TAATATTTCAAAGACCAAAGAATGAATCTCCTGATGAGTTTTTTGCACTCAAAAATGCAC
AACATGTAAACACAGTGCAAGATCCTTTTCCACTTGCTTGTGATATTCTTAAACGTGCTA
CAGTCATGTATTTTTGTAAATTATACGACATCACTGAATATAAAAGTCCAGAAGAATTTC
TTGCTAAAAAAGCAGTAAAAATGGGAAAACTTATTCGAGGTGGAGTGCCAGATGTGAGAG
CAGCTGCAAGGAGTTTAATTCAAGATTGGAATACTGGTAAAATTAAATACTGTACACATC
CACCAGTTGACAATTCTATGGATATTCATTTAAGTGCTGCAATTGTTGATAATTCATCAT
CCGATAATAAAGAGTTTTGTGTTGATAATTTAGATGAATTTATGAATCAATTAGATGAAC
ACTATAATTTAAATGATGAAGTTGTTATGGATATTGAAACAAAAGGACCAGTATCATTGC
GAACTAATAAGAAGCAAAAGAATGAATCATATGGTGAAGCAAATATCATTGAAGAAGATG
ATGATGAAGAAATGTCAGAAGAACCTGTCAATAAAAAGAAAAAACGAAAAGGTGCAGATG
AAGATGACGATTATAAAGTGAAAAAGATCAAAAGTGATCCTGTTTTTAGGCTTGAAGGTA
ATCAATCGCTCAACAAACAAAATAAAGATGCTGCAAAAAAGCTAAAAAAGAAGCGAGAGA
AGAATGAAAAGAAAATTACAAATGTTGCTGATGTTTTAGAAAACTTTTCATTAGAAACTG
GCGACGATTATGATTTTGATGATGATTACAATATTGAATGA
>g1173.t4 Gene=g1173 Length=493
MVNEANQRAEGHIEKEEGVNDGSYQNQQRTKENSLKSYFKEFKKVVDAADVILEVCDARD
PLGTRCSEVTTIIRESPGQKKHVLIVNKADLVPRENLDKWIKYLRKFGPVIPFKASTQAQ
KNNIGHRRFNKNKQHKNINQLSTCIGADLLMSLLANYCRNKNLKTSIRVGIVGLPNTGKS
SIINSLKRRKACLVGAQPGITKAMQEVEIDSNIKLIDSPGIIFQRPKNESPDEFFALKNA
QHVNTVQDPFPLACDILKRATVMYFCKLYDITEYKSPEEFLAKKAVKMGKLIRGGVPDVR
AAARSLIQDWNTGKIKYCTHPPVDNSMDIHLSAAIVDNSSSDNKEFCVDNLDEFMNQLDE
HYNLNDEVVMDIETKGPVSLRTNKKQKNESYGEANIIEEDDDEEMSEEPVNKKKKRKGAD
EDDDYKVKKIKSDPVFRLEGNQSLNKQNKDAAKKLKKKREKNEKKITNVADVLENFSLET
GDDYDFDDDYNIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1173.t4 | CDD | cd04178 | Nucleostemin_like | 50 | 221 | 6.9545E-94 |
| 9 | g1173.t4 | Coils | Coil | Coil | 441 | 465 | - |
| 7 | g1173.t4 | Gene3D | G3DSA:3.40.50.300 | - | 38 | 224 | 7.0E-47 |
| 8 | g1173.t4 | Gene3D | G3DSA:1.10.1580.10 | - | 241 | 315 | 1.8E-9 |
| 12 | g1173.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 30 | - |
| 11 | g1173.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 399 | 461 | - |
| 13 | g1173.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 407 | 435 | - |
| 2 | g1173.t4 | PANTHER | PTHR11089 | GTP-BINDING PROTEIN-RELATED | 12 | 465 | 7.7E-127 |
| 3 | g1173.t4 | PANTHER | PTHR11089:SF30 | GUANINE NUCLEOTIDE-BINDING PROTEIN-LIKE 3 HOMOLOG | 12 | 465 | 7.7E-127 |
| 5 | g1173.t4 | PRINTS | PR00326 | GTP1/OBG GTP-binding protein family signature | 169 | 189 | 7.1E-7 |
| 4 | g1173.t4 | PRINTS | PR00326 | GTP1/OBG GTP-binding protein family signature | 215 | 230 | 7.1E-7 |
| 1 | g1173.t4 | Pfam | PF01926 | 50S ribosome-binding GTPase | 168 | 248 | 6.6E-15 |
| 14 | g1173.t4 | ProSiteProfiles | PS51721 | Circularly permuted (CP)-type guanine nucleotide-binding (G) domain profile. | 39 | 224 | 37.274 |
| 6 | g1173.t4 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 37 | 300 | 8.29E-38 |
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:0005525 | GTP binding | MF |
KEGG
Orthology
- This transcript has been annotated with K14538 (nuclear GTP-binding protein)
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.
