General information for g5066.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5066 is located on chr_2: 6729623..6735118 (- 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 | g5066 | g5066.t3 | TTS | g5066.t3 | 6727043 | 6727043 |
| chr_2 | g5066 | g5066.t3 | isoform | g5066.t3 | 6727262 | 6730062 |
| chr_2 | g5066 | g5066.t3 | exon | g5066.t3.exon1 | 6727262 | 6727468 |
| chr_2 | g5066 | g5066.t3 | exon | g5066.t3.exon2 | 6728447 | 6728659 |
| chr_2 | g5066 | g5066.t3 | cds | g5066.t3.CDS1 | 6728481 | 6728659 |
| chr_2 | g5066 | g5066.t3 | exon | g5066.t3.exon3 | 6728718 | 6728801 |
| chr_2 | g5066 | g5066.t3 | cds | g5066.t3.CDS2 | 6728718 | 6728801 |
| chr_2 | g5066 | g5066.t3 | exon | g5066.t3.exon4 | 6728861 | 6728987 |
| chr_2 | g5066 | g5066.t3 | cds | g5066.t3.CDS3 | 6728861 | 6728987 |
| chr_2 | g5066 | g5066.t3 | exon | g5066.t3.exon5 | 6729071 | 6729115 |
| chr_2 | g5066 | g5066.t3 | cds | g5066.t3.CDS4 | 6729071 | 6729115 |
| chr_2 | g5066 | g5066.t3 | exon | g5066.t3.exon6 | 6729197 | 6729380 |
| chr_2 | g5066 | g5066.t3 | cds | g5066.t3.CDS5 | 6729197 | 6729380 |
| chr_2 | g5066 | g5066.t3 | exon | g5066.t3.exon7 | 6729623 | 6730062 |
| chr_2 | g5066 | g5066.t3 | cds | g5066.t3.CDS6 | 6729623 | 6729879 |
| chr_2 | g5066 | g5066.t3 | TSS | g5066.t3 | NA | NA |
Sequences
>g5066.t3 Gene=g5066 Length=1300
CCAAATAATGTCATATATCGAACACCAAATTCCATTGTTAATCAGCAAGAAGTTCCAGTA
TATAGTACTACAGATTATTATGATGGACGACCAAACAGACCTAATTCAATTGAATTGCGA
AGAAGTTATCCTGAGGGATCAGAAAGCGGTTATGCGCCAGCATCACCACATTATCAACAA
CAAATGAGTTATCCTCAACAGATGAATGATGAATCAGCTTATAATTCAGCCATGTACGCA
CAATCGCAGATTGAAAGTCCATATGGTGCACCTGGTACTCCATCACGAGGAGGAAAAATT
AGACCAACACAGCCACCACCAGCACCACCATCAAGCGGCTCGGGAGGCACACCAAATGTT
TCAAATGCTAATACTCCAACTAGAGGTCGTAGTATGAGTCAAGGCAGAGATGTTCTTCCT
CCACCTCCGCCTATTCCAAGTAACATTTCATCACCACAACAAGTTGCAAATGGTATTTTA
AGACATCCAGGTAGAACTTCAATGAATACAAGAGGAGATTCACCTCAAAGAACAGACTTG
AATAATCATGTAATGGCGCAGTTAAATAGTCAAATTACTAATATTGATATAAATGATCTT
CCGCCCCCACCACCAGTTCCACAGTATCATATGTCGCCCTCTAATAATATTGCTCCACCA
GCACCACCTATTGCACCACCACCTCCAGCTCTTCCCAATGGCAATTTATCAAATGGCATC
ACCACAAATAATAAACCAGCTAATATTATAACGCCACCACCAAATCATGCAGGTTTATTG
AAAGAAATTGAAACAGGCATCTCATTACGAAAAGTAGACCCACAGCAACAAAATCAACGT
TCTTATAATCAAGGCGATTTAATGAAAGAGATTCGAGAAGGAATAAAATTACGCAAGGTT
GAACAAATGCGTGACGATATTCGTCAACAAAAGCAGTCTAATCTCCATGATGTTGCATCA
ATTCTTGCTCGACGTGTAGCAATCGAATTGTCTGACTCAGAAAGTGACAGCGATGACAGT
GACGAAGAATGGATGGAGCCAAATGAAACATCTGCTTGACCAAACGAAAAAAATGAAAAG
TCTAAAGGTGAAAGAACATTTTTAGAAAAAAAAAAATATTTTTGAAAGTAAATGATATTA
TAAAAGTCATTTGATTGGGAATGAAGGACAAGTTAAAGCATTTAATCAAACATTTCATAT
ATGACAAAAGTATCCTTTGAATGCACGCATCTAAGACAAAATCAATAGTTCATCATCATA
AAATATGCTTACAATAAAAATTACAACAAAAGAATGAAAA
>g5066.t3 Gene=g5066 Length=291
MSYPQQMNDESAYNSAMYAQSQIESPYGAPGTPSRGGKIRPTQPPPAPPSSGSGGTPNVS
NANTPTRGRSMSQGRDVLPPPPPIPSNISSPQQVANGILRHPGRTSMNTRGDSPQRTDLN
NHVMAQLNSQITNIDINDLPPPPPVPQYHMSPSNNIAPPAPPIAPPPPALPNGNLSNGIT
TNNKPANIITPPPNHAGLLKEIETGISLRKVDPQQQNQRSYNQGDLMKEIREGIKLRKVE
QMRDDIRQQKQSNLHDVASILARRVAIELSDSESDSDDSDEEWMEPNETSA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g5066.t3 | Gene3D | G3DSA:1.20.58.1570 | - | 215 | 285 | 3.9E-18 |
| 11 | g5066.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 117 | - |
| 12 | g5066.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 28 | - |
| 10 | g5066.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 53 | 71 | - |
| 9 | g5066.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 102 | 117 | - |
| 8 | g5066.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 269 | 291 | - |
| 7 | g5066.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 272 | 291 | - |
| 3 | g5066.t3 | PANTHER | PTHR12902:SF8 | WISKOTT-ALDRICH SYNDROME PROTEIN FAMILY MEMBER 1 | 22 | 285 | 5.6E-13 |
| 4 | g5066.t3 | PANTHER | PTHR12902 | WASP-1 | 22 | 285 | 5.6E-13 |
| 2 | g5066.t3 | Pfam | PF02205 | WH2 motif | 191 | 211 | 0.036 |
| 1 | g5066.t3 | Pfam | PF02205 | WH2 motif | 224 | 241 | 0.0023 |
| 14 | g5066.t3 | ProSiteProfiles | PS51082 | WH2 domain profile. | 194 | 211 | 8.192 |
| 15 | g5066.t3 | ProSiteProfiles | PS51082 | WH2 domain profile. | 222 | 239 | 9.332 |
| 5 | g5066.t3 | SMART | SM00246 | wh2_8 | 194 | 211 | 1.6 |
| 6 | g5066.t3 | SMART | SM00246 | wh2_8 | 222 | 239 | 0.015 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5066/g5066.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5066.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005856 | cytoskeleton | CC |
| GO:0003779 | actin binding | MF |
| GO:0030036 | actin cytoskeleton organization | BP |
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.
