General information for g8050.t1
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.t1 | TSS | g8050.t1 | 28218443 | 28218443 |
| chr_2 | g8050 | g8050.t1 | isoform | g8050.t1 | 28218609 | 28220900 |
| chr_2 | g8050 | g8050.t1 | exon | g8050.t1.exon1 | 28218609 | 28218647 |
| chr_2 | g8050 | g8050.t1 | cds | g8050.t1.CDS1 | 28218609 | 28218647 |
| chr_2 | g8050 | g8050.t1 | exon | g8050.t1.exon2 | 28218741 | 28219982 |
| chr_2 | g8050 | g8050.t1 | cds | g8050.t1.CDS2 | 28218741 | 28219982 |
| chr_2 | g8050 | g8050.t1 | exon | g8050.t1.exon3 | 28220050 | 28220288 |
| chr_2 | g8050 | g8050.t1 | cds | g8050.t1.CDS3 | 28220050 | 28220288 |
| chr_2 | g8050 | g8050.t1 | exon | g8050.t1.exon4 | 28220358 | 28220553 |
| chr_2 | g8050 | g8050.t1 | cds | g8050.t1.CDS4 | 28220358 | 28220553 |
| chr_2 | g8050 | g8050.t1 | exon | g8050.t1.exon5 | 28220610 | 28220900 |
| chr_2 | g8050 | g8050.t1 | cds | g8050.t1.CDS5 | 28220610 | 28220900 |
| chr_2 | g8050 | g8050.t1 | TTS | g8050.t1 | 28221122 | 28221122 |
Sequences
>g8050.t1 Gene=g8050 Length=2007
ATGTTGAAAAATAATCAAAATTCGAGGAAAAAGATGCAGGTGTCATTTGTGATACGTGAT
GCCGAAGAAAAACGTCATAAAAGAGGAGTAAATGCATTACAGCTGGATCATAATAATGGA
AGATTATTTAGCTGTGGACGAGATGCAATTATTAGAATTTGGAATACTAACTCAAATAAT
ATGGACAACTCTTATATACAATCGCTAGAGCATCACAATGACTGGGTGAATGATATCGTA
CTCTGTTGTTCAGGAAGAAATTTAATAAGTGCTAGCTGTGATACGACAGTAAAAGTTTGG
AACGCTCATAAAGGCTTCTGTATGTCAACACTTCGAACTCATCGAGATTATGTACAAGCA
TTAGCATACGCAAAAGATCGCGAACAGGTTGCAAGTGCAGGTCTTGATAAACAAATCTTT
TTATGGGATGTTAATACATTGACAGCATTAACAGCGAGCAACAATACTGTAACAACATCA
TCATTAACTGGATCTAAGCATTCAATTTATGGGTTAGCAATTAACCATTCAGGCACAATA
ATAGCAAGTGGTTCAACTGAAAATGTCATTCGTTGCTGGGATCCGCGTACGTGCAATCGG
CTTATAAAGCTCAAAGGTCACACCGAAAATATCAAATCATTAGTAATTTCTGCTGATGGT
AGTCATATCTTGTCAGGAAGTAGTGATGGAACAATAAAATTATGGAGTGTAGGACAACAA
AGATGTCTACAAACAATTCAAGTCCATTCAGAAGGTGTGTGGTGTCTACTAGTGAACGAA
AATTTTACTCATGTCATATCTGGGAGTCGCGATAAGAAAATTTTTATGACAGAAATTCGC
AATCCCTATAACTCAGTGTGTGTGTGTGAAGAAACATCACCAGTGCTTAATATGTGCTAT
AACATTGATTATACTGGAATTTGGACTACTACATGGAATTCTGATATAAAAATGTGGAAA
CTTCCGAAAACAGATAAGCTATCAGTGAAAAGTCAAGAAAATTCTTCTAATCTTTCGTTA
AACGAACAGCAAGCAGTTGCACCATTTAATACAACGGAAGAAAAGCTAATTAAAGGAGGT
GCAGCTGTTGAAAAATATGTAGTTTTGAACGATAAGAGATTTATGGTAACACGTGATACA
GATCAAAATGTAGCAATTTATGATGTCCTTAAAGCCGTTCGAGTAGAGAATCTTGGTAAA
GTAGATTTCGATGAAGTAGTAAAAAATCGTAACAAAATGGTATATGTACCTAACTGGTTT
ACTGTTGATTTGAAAACTGGAATGCCAACGATAGTTTTAGGGCAAGATGAAGTCGATTGT
TTTTCCGCATGGGTTTCAGCAACGGAGGCAGGCTTGGGAGTTGGGCAAGCTGAAAATGGA
TCTGATCCTAAAGTTAATTATGGTAGCTTATTGTTACAAGCACTTTTAGAATATTGGCCT
CAGCCAATGGCAGATATCGACAATGATATAAGAGGAAATGAATATTTTAAAGTACCCAAA
CATACACCAATTTTGTTCAGTGAAGTGGGCGGTCGTACAGGATGCAGATTATTAGTAAGA
GATGCAGCTGGTGATACAGAAAGCGCATTATTACACGAAGCAGTACCGTCATGGGTTGCA
GACGTGGTTATTGATCGAAACATTCCACGGTTTATAAAAATTCCTTTCTTTCTTTTACCT
CATCCAGTAATGGTCAAACAAGATCGAATGAAAAAAGATCGATTGATTGCCAATGAATTT
ATACAATGCCGAAAAGTATGTGAACATGTTCTCGATAAAATACTAGAAAATCCAACTACA
ACGGGTAATGGAACAGGAGTAAATTCATCTCAGAATAATAGTGATACAAGTGAGAGCTCA
CAAATTCCCGCCGAGGATAAAATAGAATTATTATGCAACGATGTCGTATGTGATCCGTCA
ATGGATTTAAGAACAGTAAAGCATTTCATATGGAAGCAATCAAGCGATTTAACTTTTTAT
TATAAGACGAAGCCAAACTTTAGTTAA
>g8050.t1 Gene=g8050 Length=668
MLKNNQNSRKKMQVSFVIRDAEEKRHKRGVNALQLDHNNGRLFSCGRDAIIRIWNTNSNN
MDNSYIQSLEHHNDWVNDIVLCCSGRNLISASCDTTVKVWNAHKGFCMSTLRTHRDYVQA
LAYAKDREQVASAGLDKQIFLWDVNTLTALTASNNTVTTSSLTGSKHSIYGLAINHSGTI
IASGSTENVIRCWDPRTCNRLIKLKGHTENIKSLVISADGSHILSGSSDGTIKLWSVGQQ
RCLQTIQVHSEGVWCLLVNENFTHVISGSRDKKIFMTEIRNPYNSVCVCEETSPVLNMCY
NIDYTGIWTTTWNSDIKMWKLPKTDKLSVKSQENSSNLSLNEQQAVAPFNTTEEKLIKGG
AAVEKYVVLNDKRFMVTRDTDQNVAIYDVLKAVRVENLGKVDFDEVVKNRNKMVYVPNWF
TVDLKTGMPTIVLGQDEVDCFSAWVSATEAGLGVGQAENGSDPKVNYGSLLLQALLEYWP
QPMADIDNDIRGNEYFKVPKHTPILFSEVGGRTGCRLLVRDAAGDTESALLHEAVPSWVA
DVVIDRNIPRFIKIPFFLLPHPVMVKQDRMKKDRLIANEFIQCRKVCEHVLDKILENPTT
TGNGTGVNSSQNNSDTSESSQIPAEDKIELLCNDVVCDPSMDLRTVKHFIWKQSSDLTFY
YKTKPNFS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g8050.t1 | CDD | cd00200 | WD40 | 24 | 320 | 1.875E-60 |
| 16 | g8050.t1 | CDD | cd17041 | Ubl_WDR48 | 551 | 662 | 2.61788E-36 |
| 14 | g8050.t1 | Gene3D | G3DSA:2.130.10.10 | - | 15 | 155 | 5.8E-32 |
| 15 | g8050.t1 | Gene3D | G3DSA:2.130.10.10 | - | 156 | 407 | 1.3E-39 |
| 28 | g8050.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 601 | 620 | - |
| 9 | g8050.t1 | PANTHER | PTHR19862 | WD REPEAT-CONTAINING PROTEIN 48 | 10 | 481 | 1.2E-116 |
| 8 | g8050.t1 | PANTHER | PTHR19862 | WD REPEAT-CONTAINING PROTEIN 48 | 495 | 664 | 1.2E-116 |
| 12 | g8050.t1 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 88 | 102 | 2.4E-6 |
| 11 | g8050.t1 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 130 | 144 | 2.4E-6 |
| 10 | g8050.t1 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 223 | 237 | 2.4E-6 |
| 5 | g8050.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 26 | 55 | 0.081 |
| 3 | g8050.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 66 | 101 | 0.0071 |
| 7 | g8050.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 107 | 143 | 0.0087 |
| 6 | g8050.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 160 | 194 | 0.017 |
| 2 | g8050.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 201 | 236 | 3.4E-6 |
| 4 | g8050.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 241 | 274 | 0.094 |
| 1 | g8050.t1 | Pfam | PF11816 | Domain of unknown function (DUF3337) | 498 | 662 | 7.4E-44 |
| 25 | g8050.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 42 | 56 | - |
| 27 | g8050.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 88 | 102 | - |
| 26 | g8050.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 130 | 144 | - |
| 29 | g8050.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 23 | 329 | 50.726 |
| 34 | g8050.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 23 | 64 | 11.277 |
| 33 | g8050.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 69 | 110 | 11.11 |
| 31 | g8050.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 111 | 152 | 13.182 |
| 32 | g8050.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 162 | 203 | 10.375 |
| 30 | g8050.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 204 | 245 | 16.323 |
| 20 | g8050.t1 | SMART | SM00320 | WD40_4 | 11 | 55 | 0.0028 |
| 19 | g8050.t1 | SMART | SM00320 | WD40_4 | 62 | 101 | 1.6E-6 |
| 23 | g8050.t1 | SMART | SM00320 | WD40_4 | 104 | 143 | 6.8E-6 |
| 21 | g8050.t1 | SMART | SM00320 | WD40_4 | 155 | 194 | 5.0E-5 |
| 18 | g8050.t1 | SMART | SM00320 | WD40_4 | 197 | 236 | 4.5E-9 |
| 22 | g8050.t1 | SMART | SM00320 | WD40_4 | 239 | 278 | 7.4E-4 |
| 24 | g8050.t1 | SMART | SM00320 | WD40_4 | 282 | 320 | 18.0 |
| 13 | g8050.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 24 | 391 | 6.54E-68 |
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 K15361 (WD repeat-containing protein 48)
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.
