General information for g8050.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as WD repeat-containing protein 48-like protein.
Parent gene
- The parent gene g8050 is located on chr_2: 28220551..28221268 (+ 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_2 | g8050 | g8050.t2 | TSS | g8050.t2 | 28218443 | 28218443 |
| chr_2 | g8050 | g8050.t2 | isoform | g8050.t2 | 28218609 | 28219982 |
| chr_2 | g8050 | g8050.t2 | exon | g8050.t2.exon1 | 28218609 | 28218651 |
| chr_2 | g8050 | g8050.t2 | exon | g8050.t2.exon2 | 28218741 | 28219982 |
| chr_2 | g8050 | g8050.t2 | cds | g8050.t2.CDS1 | 28218882 | 28219982 |
| chr_2 | g8050 | g8050.t2 | TTS | g8050.t2 | NA | NA |
Sequences
>g8050.t2 Gene=g8050 Length=1285
ATGTTGAAAAATAATCAAAATTCGAGGAAAAAGATGCAGGCAAGTGTCATTTGTGATACG
TGATGCCGAAGAAAAACGTCATAAAAGAGGAGTAAATGCATTACAGCTGGATCATAATAA
TGGAAGATTATTTAGCTGTGGACGAGATGCAATTATTAGAATTTGGAATACTAACTCAAA
TAATATGGACAACTCTTATATACAATCGCTAGAGCATCACAATGACTGGGTGAATGATAT
CGTACTCTGTTGTTCAGGAAGAAATTTAATAAGTGCTAGCTGTGATACGACAGTAAAAGT
TTGGAACGCTCATAAAGGCTTCTGTATGTCAACACTTCGAACTCATCGAGATTATGTACA
AGCATTAGCATACGCAAAAGATCGCGAACAGGTTGCAAGTGCAGGTCTTGATAAACAAAT
CTTTTTATGGGATGTTAATACATTGACAGCATTAACAGCGAGCAACAATACTGTAACAAC
ATCATCATTAACTGGATCTAAGCATTCAATTTATGGGTTAGCAATTAACCATTCAGGCAC
AATAATAGCAAGTGGTTCAACTGAAAATGTCATTCGTTGCTGGGATCCGCGTACGTGCAA
TCGGCTTATAAAGCTCAAAGGTCACACCGAAAATATCAAATCATTAGTAATTTCTGCTGA
TGGTAGTCATATCTTGTCAGGAAGTAGTGATGGAACAATAAAATTATGGAGTGTAGGACA
ACAAAGATGTCTACAAACAATTCAAGTCCATTCAGAAGGTGTGTGGTGTCTACTAGTGAA
CGAAAATTTTACTCATGTCATATCTGGGAGTCGCGATAAGAAAATTTTTATGACAGAAAT
TCGCAATCCCTATAACTCAGTGTGTGTGTGTGAAGAAACATCACCAGTGCTTAATATGTG
CTATAACATTGATTATACTGGAATTTGGACTACTACATGGAATTCTGATATAAAAATGTG
GAAACTTCCGAAAACAGATAAGCTATCAGTGAAAAGTCAAGAAAATTCTTCTAATCTTTC
GTTAAACGAACAGCAAGCAGTTGCACCATTTAATACAACGGAAGAAAAGCTAATTAAAGG
AGGTGCAGCTGTTGAAAAATATGTAGTTTTGAACGATAAGAGATTTATGGTAACACGTGA
TACAGATCAAAATGTAGCAATTTATGATGTCCTTAAAGCCGTTCGAGTAGAGAATCTTGG
TAAAGTAGATTTCGATGAAGTAGTAAAAAATCGTAACAAAATGGTATATGTACCTAACTG
GTTTACTGTTGATTTGAAAACTGGA
>g8050.t2 Gene=g8050 Length=367
MDNSYIQSLEHHNDWVNDIVLCCSGRNLISASCDTTVKVWNAHKGFCMSTLRTHRDYVQA
LAYAKDREQVASAGLDKQIFLWDVNTLTALTASNNTVTTSSLTGSKHSIYGLAINHSGTI
IASGSTENVIRCWDPRTCNRLIKLKGHTENIKSLVISADGSHILSGSSDGTIKLWSVGQQ
RCLQTIQVHSEGVWCLLVNENFTHVISGSRDKKIFMTEIRNPYNSVCVCEETSPVLNMCY
NIDYTGIWTTTWNSDIKMWKLPKTDKLSVKSQENSSNLSLNEQQAVAPFNTTEEKLIKGG
AAVEKYVVLNDKRFMVTRDTDQNVAIYDVLKAVRVENLGKVDFDEVVKNRNKMVYVPNWF
TVDLKTG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g8050.t2 | CDD | cd00200 | WD40 | 2 | 260 | 1.14961E-51 |
| 11 | g8050.t2 | Gene3D | G3DSA:2.130.10.10 | - | 2 | 95 | 1.5E-22 |
| 12 | g8050.t2 | Gene3D | G3DSA:2.130.10.10 | - | 96 | 353 | 3.1E-40 |
| 6 | g8050.t2 | PANTHER | PTHR19862 | WD REPEAT-CONTAINING PROTEIN 48 | 4 | 365 | 2.3E-84 |
| 8 | g8050.t2 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 28 | 42 | 4.9E-7 |
| 7 | g8050.t2 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 70 | 84 | 4.9E-7 |
| 9 | g8050.t2 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 163 | 177 | 4.9E-7 |
| 4 | g8050.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 6 | 41 | 0.0033 |
| 5 | g8050.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 47 | 83 | 0.004 |
| 3 | g8050.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 100 | 134 | 0.0078 |
| 1 | g8050.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 141 | 176 | 1.6E-6 |
| 2 | g8050.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 181 | 214 | 0.044 |
| 15 | g8050.t2 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 28 | 42 | - |
| 14 | g8050.t2 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 70 | 84 | - |
| 22 | g8050.t2 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 9 | 269 | 44.03 |
| 26 | g8050.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 9 | 50 | 11.11 |
| 23 | g8050.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 51 | 92 | 13.182 |
| 25 | g8050.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 102 | 143 | 10.375 |
| 24 | g8050.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 144 | 185 | 16.323 |
| 21 | g8050.t2 | SMART | SM00320 | WD40_4 | 2 | 41 | 1.6E-6 |
| 17 | g8050.t2 | SMART | SM00320 | WD40_4 | 44 | 83 | 6.8E-6 |
| 18 | g8050.t2 | SMART | SM00320 | WD40_4 | 95 | 134 | 5.0E-5 |
| 19 | g8050.t2 | SMART | SM00320 | WD40_4 | 137 | 176 | 4.5E-9 |
| 16 | g8050.t2 | SMART | SM00320 | WD40_4 | 179 | 218 | 7.4E-4 |
| 20 | g8050.t2 | SMART | SM00320 | WD40_4 | 222 | 260 | 18.0 |
| 10 | g8050.t2 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 4 | 331 | 1.07E-59 |
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 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.
