General information for g1173.t1
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.t1 | isoform | g1173.t1 | 8485744 | 8487626 |
| chr_3 | g1173 | g1173.t1 | exon | g1173.t1.exon1 | 8485744 | 8487506 |
| chr_3 | g1173 | g1173.t1 | cds | g1173.t1.CDS1 | 8485744 | 8487506 |
| chr_3 | g1173 | g1173.t1 | exon | g1173.t1.exon2 | 8487605 | 8487626 |
| chr_3 | g1173 | g1173.t1 | cds | g1173.t1.CDS2 | 8487605 | 8487626 |
| chr_3 | g1173 | g1173.t1 | TSS | g1173.t1 | 8487684 | 8487684 |
| chr_3 | g1173 | g1173.t1 | TTS | g1173.t1 | NA | NA |
Sequences
>g1173.t1 Gene=g1173 Length=1785
ATGTCTTTGAAAGGCTTAAAAAACAGAAAATCAAGAAGAGTTCCAGCAGCTCGCAGATAT
AAAATTATCAAAAAGATTGCAGCTTCAAAACGCAAGAAGGAGAAAGAAGCAAAGAAATTA
CCCAAAAAAAGTGCTAAACAAAAGCTTATTCAAATTCCAAATGTTTGTCCTTTCAAAGAA
AAAATTCTCGAAGAAGTAGAAGCAGATAAAGCACGTCGTGAAGAAGAGAAGAGAGAAAGA
TTGGAGAAATTAAAGTTGGAAAGACAAGAGGCAAAAAAGAATAAGCATACAACACTTGAA
TCAATGGTAAATGAAGCTAATCAACGAGCAGAAGGACATATTGAAAAGGAAGAAGGAGTT
AATGATGGTTCTTATCAAAATCAACAGCGAACAAAAGAAAACTCACTCAAATCATATTTC
AAAGAGTTTAAAAAAGTTGTGGATGCTGCAGATGTTATTTTGGAAGTTTGTGATGCTCGT
GATCCTCTTGGAACTCGTTGCAGCGAAGTCACAACAATTATACGAGAATCACCCGGTCAA
AAGAAACATGTTTTGATTGTGAATAAAGCGGATTTAGTACCGAGAGAAAATCTAGATAAA
TGGATTAAATATTTGAGGAAATTCGGACCAGTTATTCCGTTCAAAGCAAGTACACAAGCA
CAGAAAAATAATATTGGTCACAGACGATTTAATAAGAATAAACAACATAAAAATATTAAT
CAATTATCGACATGCATTGGTGCAGATTTACTTATGTCTCTTCTGGCAAACTATTGTCGC
AATAAGAATTTAAAAACTTCAATTCGAGTTGGCATAGTTGGATTACCAAATACGGGCAAG
AGTTCAATTATAAATTCACTTAAGAGACGAAAGGCATGTTTAGTTGGTGCTCAACCAGGA
ATAACTAAAGCAATGCAAGAAGTTGAAATTGATTCAAACATTAAACTCATTGATAGTCCA
GGAATAATATTTCAAAGACCAAAGAATGAATCTCCTGATGAGTTTTTTGCACTCAAAAAT
GCACAACATGTAAACACAGTGCAAGATCCTTTTCCACTTGCTTGTGATATTCTTAAACGT
GCTACAGTCATGTATTTTTGTAAATTATACGACATCACTGAATATAAAAGTCCAGAAGAA
TTTCTTGCTAAAAAAGCAGTAAAAATGGGAAAACTTATTCGAGGTGGAGTGCCAGATGTG
AGAGCAGCTGCAAGGAGTTTAATTCAAGATTGGAATACTGGTAAAATTAAATACTGTACA
CATCCACCAGTTGACAATTCTATGGATATTCATTTAAGTGCTGCAATTGTTGATAATTCA
TCATCCGATAATAAAGAGTTTTGTGTTGATAATTTAGATGAATTTATGAATCAATTAGAT
GAACACTATAATTTAAATGATGAAGTTGTTATGGATATTGAAACAAAAGGACCAGTATCA
TTGCGAACTAATAAGAAGCAAAAGAATGAATCATATGGTGAAGCAAATATCATTGAAGAA
GATGATGATGAAGAAATGTCAGAAGAACCTGTCAATAAAAAGAAAAAACGAAAAGGTGCA
GATGAAGATGACGATTATAAAGTGAAAAAGATCAAAAGTGATCCTGTTTTTAGGCTTGAA
GGTAATCAATCGCTCAACAAACAAAATAAAGATGCTGCAAAAAAGCTAAAAAAGAAGCGA
GAGAAGAATGAAAAGAAAATTACAAATGTTGCTGATGTTTTAGAAAACTTTTCATTAGAA
ACTGGCGACGATTATGATTTTGATGATGATTACAATATTGAATGA
>g1173.t1 Gene=g1173 Length=594
MSLKGLKNRKSRRVPAARRYKIIKKIAASKRKKEKEAKKLPKKSAKQKLIQIPNVCPFKE
KILEEVEADKARREEEKRERLEKLKLERQEAKKNKHTTLESMVNEANQRAEGHIEKEEGV
NDGSYQNQQRTKENSLKSYFKEFKKVVDAADVILEVCDARDPLGTRCSEVTTIIRESPGQ
KKHVLIVNKADLVPRENLDKWIKYLRKFGPVIPFKASTQAQKNNIGHRRFNKNKQHKNIN
QLSTCIGADLLMSLLANYCRNKNLKTSIRVGIVGLPNTGKSSIINSLKRRKACLVGAQPG
ITKAMQEVEIDSNIKLIDSPGIIFQRPKNESPDEFFALKNAQHVNTVQDPFPLACDILKR
ATVMYFCKLYDITEYKSPEEFLAKKAVKMGKLIRGGVPDVRAAARSLIQDWNTGKIKYCT
HPPVDNSMDIHLSAAIVDNSSSDNKEFCVDNLDEFMNQLDEHYNLNDEVVMDIETKGPVS
LRTNKKQKNESYGEANIIEEDDDEEMSEEPVNKKKKRKGADEDDDYKVKKIKSDPVFRLE
GNQSLNKQNKDAAKKLKKKREKNEKKITNVADVLENFSLETGDDYDFDDDYNIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1173.t1 | CDD | cd04178 | Nucleostemin_like | 151 | 322 | 4.83776E-92 |
| 11 | g1173.t1 | Coils | Coil | Coil | 59 | 101 | - |
| 10 | g1173.t1 | Coils | Coil | Coil | 542 | 566 | - |
| 8 | g1173.t1 | Gene3D | G3DSA:3.40.50.300 | - | 138 | 325 | 1.1E-46 |
| 9 | g1173.t1 | Gene3D | G3DSA:1.10.1580.10 | - | 342 | 416 | 2.4E-9 |
| 15 | g1173.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 26 | 47 | - |
| 13 | g1173.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 500 | 562 | - |
| 14 | g1173.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 508 | 536 | - |
| 3 | g1173.t1 | PANTHER | PTHR11089 | GTP-BINDING PROTEIN-RELATED | 9 | 566 | 1.0E-146 |
| 4 | g1173.t1 | PANTHER | PTHR11089:SF30 | GUANINE NUCLEOTIDE-BINDING PROTEIN-LIKE 3 HOMOLOG | 9 | 566 | 1.0E-146 |
| 5 | g1173.t1 | PRINTS | PR00326 | GTP1/OBG GTP-binding protein family signature | 270 | 290 | 9.9E-7 |
| 6 | g1173.t1 | PRINTS | PR00326 | GTP1/OBG GTP-binding protein family signature | 316 | 331 | 9.9E-7 |
| 1 | g1173.t1 | Pfam | PF08701 | GNL3L/Grn1 putative GTPase | 18 | 90 | 4.4E-16 |
| 2 | g1173.t1 | Pfam | PF01926 | 50S ribosome-binding GTPase | 269 | 349 | 8.8E-15 |
| 16 | g1173.t1 | ProSiteProfiles | PS51721 | Circularly permuted (CP)-type guanine nucleotide-binding (G) domain profile. | 140 | 325 | 37.274 |
| 7 | g1173.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 138 | 401 | 1.33E-37 |
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.
