General information for g1795.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Wiskott-Aldrich syndrome protein.
Parent gene
- The parent gene g1795 is located on chr_3: 13058912..13066148 (+ 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 | g1795 | g1795.t1 | TSS | g1795.t1 | 13055709 | 13055709 |
| chr_3 | g1795 | g1795.t1 | isoform | g1795.t1 | 13056461 | 13059462 |
| chr_3 | g1795 | g1795.t1 | exon | g1795.t1.exon1 | 13056461 | 13056799 |
| chr_3 | g1795 | g1795.t1 | cds | g1795.t1.CDS1 | 13056461 | 13056799 |
| chr_3 | g1795 | g1795.t1 | exon | g1795.t1.exon2 | 13057000 | 13057099 |
| chr_3 | g1795 | g1795.t1 | cds | g1795.t1.CDS2 | 13057000 | 13057099 |
| chr_3 | g1795 | g1795.t1 | exon | g1795.t1.exon3 | 13058085 | 13058204 |
| chr_3 | g1795 | g1795.t1 | cds | g1795.t1.CDS3 | 13058085 | 13058204 |
| chr_3 | g1795 | g1795.t1 | exon | g1795.t1.exon4 | 13058277 | 13058677 |
| chr_3 | g1795 | g1795.t1 | cds | g1795.t1.CDS4 | 13058277 | 13058677 |
| chr_3 | g1795 | g1795.t1 | exon | g1795.t1.exon5 | 13058733 | 13058912 |
| chr_3 | g1795 | g1795.t1 | cds | g1795.t1.CDS5 | 13058733 | 13058912 |
| chr_3 | g1795 | g1795.t1 | exon | g1795.t1.exon6 | 13058989 | 13059015 |
| chr_3 | g1795 | g1795.t1 | cds | g1795.t1.CDS6 | 13058989 | 13059015 |
| chr_3 | g1795 | g1795.t1 | exon | g1795.t1.exon7 | 13059082 | 13059462 |
| chr_3 | g1795 | g1795.t1 | cds | g1795.t1.CDS7 | 13059082 | 13059462 |
| chr_3 | g1795 | g1795.t1 | TTS | g1795.t1 | NA | NA |
Sequences
>g1795.t1 Gene=g1795 Length=1548
ATGTCTGCAAATAGTGAAAATAGAAATTCAACAAAATTATCAAAGTCATCAACATATCTC
TCTGGAGAAGAGAATGATCTAGTATTTCGTCTTCTTGGAAGAAGATGTCAAAGCCAATGT
ACAACAGTAGCACAACTTTATCAAACAGAAGCTCCAACACATTGTCGCTGGGTGAAAAAG
TACACGGGAGCATTATGTTTTGTAAAGGACAATGCTAAGCGATCATATTATGCGCGACTA
TTTTGTCTCATAAAGCATGAAATGATGTGGGAACAAGAAATGTATGACACTATTGAAATC
AGCCGTGTTAAGCCTTACTTACTCACATTTGAAGGACAGGACGGTATGGTGGCATTGAAT
TTTGCATTTGAGGATGAGGCCGAGACTTTTTTACATGTTGCAACAACAACTGTTCAAAAT
AGAAATAGACGGAGAGAAGAGCGAAAAAACCGCATGAAAAAAGAACCGCCAGCGAGACCA
CCACCTATATCAAAAACTCCATCCAATATTTCAACTACAGACGATTCTTCAGTTACTTTA
AGAAATCCAACAAATATAACAAAAATTGCGCCATCGCCTCAAGTTCAACCACCTTTTTTG
CAATCTTCGCTTAGCAGCTCAAAGAATAATAGAAAGCGTGATGGAACAAGAAAATTGACC
AAAGCTGATATAGGGACCCCTTCTAATTTTAAACATGTTACACATGTAGGTTGGAATGCC
AAGAGTGGATTTGATTTAAGCGGCGAAGATGAAGCGTTGCGTCCATTTCTTCAAAAAGCA
GGCGTATCTGAAAGTCAGCTAAAAGATAGACGAACAAGAGATTTTATTTATGACTTTATT
CAAACAAATAATGTTGAAGCAATTGTGAAAAATGAAACTAAAAAACCAAATGCTCCTCCA
GTTCCAACAAGACATCAAAATCAGAATGGTGAAAAACCTGCTCATCGTTTAGCGCCACCT
CCACCACCACCAAATCGTGATTATAATACAGCTAATAATGAAATTAAACGTGAAACACCG
CAGCGAGAAAGGCAACCTGCACCTCCTTTACCGAATACAATTCCTCCTGTAAGAACAACT
CCAGTAAGACCGTCACAACCAGTTGTTAGCAACAATGTTCCAGCTCCACCTGCACCACCC
CCTCCACCTCCGCCTATTTCAAATATGCCGCCTCCGCCTCCAATGATGATGAAAGAATCA
ACCGGAGCACCAAATTCATTACCAGTCGTTTCTGATGCAAGAAGCGCTCTTATGGATAGT
ATAAGAAAGGGAGCACAATTGAAAAAAGTTGAAGTATCATCGACAACAACATCAAATAGT
TCTGGTGATTCGCGTGGAGATTTAATGTCAGAAATTCGTGGCGGCTTTGAACTCAGACCA
GTAAGCGATCGACCAAGTCAACCGAATAGATCGAGTGATGGAGCTGGAACCGATGCATTA
GCTGATGCATTAAGAAGAGCTTTAGAACAAAGGAAGCAAGCATTCGGTGGTGATTCTTCA
AGTGAATCTGAAAATGATAATTCAGACGATGGAGAATGGTCAGATTAA
>g1795.t1 Gene=g1795 Length=515
MSANSENRNSTKLSKSSTYLSGEENDLVFRLLGRRCQSQCTTVAQLYQTEAPTHCRWVKK
YTGALCFVKDNAKRSYYARLFCLIKHEMMWEQEMYDTIEISRVKPYLLTFEGQDGMVALN
FAFEDEAETFLHVATTTVQNRNRRREERKNRMKKEPPARPPPISKTPSNISTTDDSSVTL
RNPTNITKIAPSPQVQPPFLQSSLSSSKNNRKRDGTRKLTKADIGTPSNFKHVTHVGWNA
KSGFDLSGEDEALRPFLQKAGVSESQLKDRRTRDFIYDFIQTNNVEAIVKNETKKPNAPP
VPTRHQNQNGEKPAHRLAPPPPPPNRDYNTANNEIKRETPQRERQPAPPLPNTIPPVRTT
PVRPSQPVVSNNVPAPPAPPPPPPPISNMPPPPPMMMKESTGAPNSLPVVSDARSALMDS
IRKGAQLKKVEVSSTTTSNSSGDSRGDLMSEIRGGFELRPVSDRPSQPNRSSDGAGTDAL
ADALRRALEQRKQAFGGDSSSESENDNSDDGEWSD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1795.t1 | CDD | cd01205 | EVH1_WASP-like | 40 | 132 | 9.57112E-39 |
| 11 | g1795.t1 | CDD | cd00132 | CRIB | 222 | 264 | 6.54935E-11 |
| 9 | g1795.t1 | Gene3D | G3DSA:2.30.29.30 | - | 4 | 150 | 4.9E-37 |
| 10 | g1795.t1 | Gene3D | G3DSA:3.90.810.10 | - | 227 | 291 | 2.4E-24 |
| 23 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 224 | - |
| 17 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 139 | 158 | - |
| 18 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 165 | 209 | - |
| 21 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 292 | 405 | - |
| 20 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 344 | 362 | - |
| 19 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 370 | 398 | - |
| 24 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 423 | 515 | - |
| 22 | g1795.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 429 | 446 | - |
| 5 | g1795.t1 | PANTHER | PTHR23202:SF39 | NEURAL WISKOTT-ALDRICH SYNDROME PROTEIN | 7 | 514 | 4.3E-83 |
| 6 | g1795.t1 | PANTHER | PTHR23202 | WASP INTERACTING PROTEIN-RELATED | 7 | 514 | 4.3E-83 |
| 4 | g1795.t1 | Pfam | PF00568 | WH1 domain | 29 | 133 | 1.9E-27 |
| 1 | g1795.t1 | Pfam | PF00786 | P21-Rho-binding domain | 223 | 281 | 5.7E-14 |
| 3 | g1795.t1 | Pfam | PF02205 | WH2 motif | 411 | 433 | 5.5E-8 |
| 2 | g1795.t1 | Pfam | PF02205 | WH2 motif | 442 | 461 | 0.0014 |
| 25 | g1795.t1 | ProSiteProfiles | PS50229 | WH1 domain profile. | 32 | 141 | 18.122 |
| 28 | g1795.t1 | ProSiteProfiles | PS50108 | CRIB domain profile. | 224 | 237 | 9.88 |
| 26 | g1795.t1 | ProSiteProfiles | PS51082 | WH2 domain profile. | 413 | 430 | 10.766 |
| 27 | g1795.t1 | ProSiteProfiles | PS51082 | WH2 domain profile. | 444 | 461 | 9.505 |
| 16 | g1795.t1 | SMART | SM00461 | WH1_2 | 32 | 138 | 3.2E-5 |
| 15 | g1795.t1 | SMART | SM00285 | PBD_5 | 224 | 260 | 1.1E-5 |
| 13 | g1795.t1 | SMART | SM00246 | wh2_8 | 413 | 430 | 6.3E-5 |
| 14 | g1795.t1 | SMART | SM00246 | wh2_8 | 444 | 461 | 0.004 |
| 7 | g1795.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 28 | 140 | 2.11E-25 |
| 8 | g1795.t1 | SUPERFAMILY | SSF47912 | Wiscott-Aldrich syndrome protein, WASP, C-terminal domain | 228 | 324 | 2.22E-22 |
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:0003779 | actin binding | MF |
| GO:0007015 | actin filament organization | BP |
| GO:2000601 | positive regulation of Arp2/3 complex-mediated actin nucleation | BP |
KEGG
Orthology
- This transcript has been annotated with K23612 (neural Wiskott-Aldrich syndrome 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.
