General information for g11614.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as U3 small nucleolar RNA-associated protein 18-like protein.
Parent gene
- The parent gene g11614 is located on chr_1: 17450182..17450679 (+ 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_1 | g11614 | g11614.t1 | TSS | g11614.t1 | 17448684 | 17448684 |
| chr_1 | g11614 | g11614.t1 | isoform | g11614.t1 | 17448740 | 17450182 |
| chr_1 | g11614 | g11614.t1 | exon | g11614.t1.exon1 | 17448740 | 17450182 |
| chr_1 | g11614 | g11614.t1 | cds | g11614.t1.CDS1 | 17448740 | 17450182 |
| chr_1 | g11614 | g11614.t1 | TTS | g11614.t1 | 17450257 | 17450257 |
Sequences
>g11614.t1 Gene=g11614 Length=1443
ATGAGTGATAGTAGTGATACAGAAGATTTATCAACCTTCATTAGACATTGTGAAGAAACA
GATGAAATTAATGGTTCGAGTGTTATTCCAAAAAAGAAACGAAAATTCAATGAACAAGAA
CAAGAAAATGAAAATGAATTGAATGAGTTTTTATTTGGTAACAAGAACAATTTATTAAAG
AATCTTGAGAGTCAGAAAAACTTTTTTCTTGACACTGGAGGTGATGAAGATGAAAAAAAA
ACTTCATCTGTCATTCAAGAATCAGTGTGGCACGATGAGGATGATGACGAGTTTGTTGAA
ATAAAAGGCAAATTGGTCAAAGAGAAGCAGAAAAGAAAATTGGAAAGAATTGGAAATACA
CCATCATGGGCAGATCTAAATAAGAAAAGAGATGTTGATGCCTCAGATTCTGATGAAGAT
GTAATTTCAAAAACAATTGGTTTTTTGGACAAAAAGAGTTCAAAGAAAGGTTTCATTCAA
AAAGGAGAAATAACATTTAAACGATTAAAGAACTTAAATCGCGTGACAGAGAATGAAGGT
GTTATATCGTCAGTTTTATTTCATCCTAGATCTTTTGTAGGAATAGTTGCTGGAAGGCAA
GGCCTTGTGTCGTTATTTGCAGTCGATGGCAAGGAAAATAAAAAAATTCACAATCTCTGC
TATGAGAAATATTTTATACATTCATGCAAACTTACAAATGACGGCAATGAATTAATAATT
GGTGGTCAACTTAAAGATTTTCATACATACGATTTGATGAGTGGCAACAAACAACGAATA
AAATTACCTCGAGGAGTAAATCATATGAAATGTTTTGAATTAAGCCCATGTGGAAAATAT
ATTGCAATTGTGGGAGATTTTGGTGAAGTACATTTGCTGCACGCTGTGACCAAAGAACTG
CTATTTACATTTAAACAGGAATTTCAAAGCACATCAATGAGTTTTTCAAACAATTCATAC
GAACTATATTCACATAGTGATGACAATGAGATCACAATTTTTGATATACGCACACAAAGA
GTAAAACATCGCTTTGTCGATGAAGGATGTGTAAATGGTACAGTTCTAAAATTAAGTTCA
AATGGAAAATTCCTGGCAACTGGAAGTCGTCAAGGGTTCGTAAATATATATAATTCTGAA
AATATATTTTCTTCAAAGTATCCTCAACCTCTCAAAGTTTTATCAAACCTCAATACAGAG
ATATCAGATTTAAAATTTAATCATACTTCTGAATTATTAGCATTCTGTTCTACTGACGAA
ACAAATGCTCTAAAACTTTTACATGTTGAGAGCGGTTCTGTTTACAGTAATTTTCCATCA
CATTTGGACAACATTGGGAAAACAAATTTGGTTACATTTTCACCTGAAAGTGGTTTTCTA
GCTGTTGGTACAATTTCATCAAAAGTACCACTTTATCGTTTAAATCATTATAATAATTAT
TAG
>g11614.t1 Gene=g11614 Length=480
MSDSSDTEDLSTFIRHCEETDEINGSSVIPKKKRKFNEQEQENENELNEFLFGNKNNLLK
NLESQKNFFLDTGGDEDEKKTSSVIQESVWHDEDDDEFVEIKGKLVKEKQKRKLERIGNT
PSWADLNKKRDVDASDSDEDVISKTIGFLDKKSSKKGFIQKGEITFKRLKNLNRVTENEG
VISSVLFHPRSFVGIVAGRQGLVSLFAVDGKENKKIHNLCYEKYFIHSCKLTNDGNELII
GGQLKDFHTYDLMSGNKQRIKLPRGVNHMKCFELSPCGKYIAIVGDFGEVHLLHAVTKEL
LFTFKQEFQSTSMSFSNNSYELYSHSDDNEITIFDIRTQRVKHRFVDEGCVNGTVLKLSS
NGKFLATGSRQGFVNIYNSENIFSSKYPQPLKVLSNLNTEISDLKFNHTSELLAFCSTDE
TNALKLLHVESGSVYSNFPSHLDNIGKTNLVTFSPESGFLAVGTISSKVPLYRLNHYNNY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g11614.t1 | Coils | Coil | Coil | 29 | 49 | - |
| 11 | g11614.t1 | Gene3D | G3DSA:2.130.10.10 | - | 159 | 475 | 4.2E-82 |
| 9 | g11614.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 24 | 42 | - |
| 10 | g11614.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 24 | 43 | - |
| 1 | g11614.t1 | PANTHER | PTHR18359 | WD-REPEAT PROTEIN-RELATED | 30 | 479 | 1.1E-107 |
| 5 | g11614.t1 | SMART | SM00320 | WD40_4 | 165 | 207 | 130.0 |
| 8 | g11614.t1 | SMART | SM00320 | WD40_4 | 212 | 251 | 370.0 |
| 7 | g11614.t1 | SMART | SM00320 | WD40_4 | 297 | 335 | 5.5 |
| 6 | g11614.t1 | SMART | SM00320 | WD40_4 | 338 | 378 | 3.2 |
| 4 | g11614.t1 | SMART | SM00320 | WD40_4 | 387 | 428 | 44.0 |
| 3 | g11614.t1 | SMART | SM00320 | WD40_4 | 431 | 473 | 410.0 |
| 2 | g11614.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 170 | 475 | 1.36E-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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K14553 (U3 small nucleolar RNA-associated protein 18)
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.
