General information for g5194.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as WD repeat-containing protein 75.
Parent gene
- The parent gene g5194 is located on chr_2: 7609963..7611055 (- 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 | g5194 | g5194.t1 | isoform | g5194.t1 | 7607958 | 7611055 |
| chr_2 | g5194 | g5194.t1 | exon | g5194.t1.exon1 | 7607958 | 7609452 |
| chr_2 | g5194 | g5194.t1 | cds | g5194.t1.CDS1 | 7607958 | 7609452 |
| chr_2 | g5194 | g5194.t1 | exon | g5194.t1.exon2 | 7609511 | 7610511 |
| chr_2 | g5194 | g5194.t1 | cds | g5194.t1.CDS2 | 7609511 | 7610511 |
| chr_2 | g5194 | g5194.t1 | exon | g5194.t1.exon3 | 7610566 | 7610773 |
| chr_2 | g5194 | g5194.t1 | cds | g5194.t1.CDS3 | 7610566 | 7610773 |
| chr_2 | g5194 | g5194.t1 | exon | g5194.t1.exon4 | 7610862 | 7611055 |
| chr_2 | g5194 | g5194.t1 | cds | g5194.t1.CDS4 | 7610862 | 7611055 |
| chr_2 | g5194 | g5194.t1 | TSS | g5194.t1 | NA | NA |
| chr_2 | g5194 | g5194.t1 | TTS | g5194.t1 | NA | NA |
Sequences
>g5194.t1 Gene=g5194 Length=2898
ATGTGTTTAGACATTGATTATCATTACAACAATCAAAATAGCATAATAAATACGAATTCT
TTGGAAAATCACAATCAAAATATTGACAACAATTCAATCACGATGGAATCAACAACAGAT
TTGAAATATAAAGTGAAAAGTATGTGCGGTGGAAGTGTCATTGAGCATAAACCATTATTT
GATTCAAGTGGAGAAAATATTTATGTAGTGCGAAAAGACAAATTAAGAATCTATAGTGTT
GAAACGGGTGAAATTGTTACAGAATTAGATGACAATAAAGATGGCCAAATAATTGGAATT
TATTTAGAAGATAATCAAACAAATCAATGTATAATAACTTGCACAACAAATGGAACGATT
GCCTTTCGAAAGTTGAAATCGAATGTTATTACAGAAAAGAAGAAATTGAATTTTAAGTTC
TCTATATTAAACAAATTTTTGGTGACAACAATCGATGGCAAATTTCATGGTCTTATTCAC
TATAATGATGAGAAAAATTTTTCACAACTTACACTGATTGAGCTGAGCACTAATAAAATC
GTTCATCGCTTTGATACACCGTTTTTAACTAATCAAGCAGATGTGAAAATGAAGTTTGCA
GATGGTAATGGCATAATTGCAATCATATCAAAAACACATCTCTTTATTATTAATAAAGAG
ACATTAGAAATAATTATGCATAGTGCTCCAAAACTATTGAGTGTTGTTGTCTGTCATCCA
GAACAAAAGATTATTGCAACTGGCGATGTTTATGGAAAAATATATTTATGGAGTAATGTT
TTTAATAAAATGCCAGTAAAAACTGATTTGCATTGGCATCACATGGTTGTGCTAAGTCTT
GCATTTTCTCAATCAGGAACAGTGCTTTATTCTGGTGGTGCTGAATGCGTTTTAGTGAAA
TGGCATATTAGAGAAACAACTTTAGGAAAGAACTTTTTACCTCGCGTTTCTGGTGGAATA
AAACAAATCAGTGTTGATACATTACATGATAAAATTGCAATTTGCATGGATGATAATTCT
ATTCAGATTATAAATTCAAATTTAACTCAATTGAAAACTATTCAAGATTTCACTCAAATT
TCACCATATGACTTGGGATTAAATCAACCATTTCCAGCTGGTATTTGCATCAATCCAAAA
AATAATCATTTAGTCATGAATGGTAAAATTGGTCATTTGCAATTCTTCTCAACAAAAACT
ATGAGACTTTTATTCAATATCGATATCACGCTGCAAAACGTCATTCCGCGTCAAAGAGAA
TTTAATCAATTTTCAACAGAAGTCACTAAAGTAGCTTTCTCAGCATGTGGAATGTGGATG
GCAACTTATGAATGCTGGAATGATAGGATTCATTCACTTGATTCTCGTATAAAGTTTTGG
AGCTTTGATAACATTAAACAAACATATTCACTTCACACTCAAATTGAATATCCTCATGAG
AAAAAAGTTGTAGCAATGCAATTTGCAAATATAGAGAAATCAATAATTTGTGCTAGTGCT
GGTTTAGATCGAGTTGTAAAAATTTGGTCACTTGAAGCATCAGAAGAAATTCAAAATCCA
AAAATGATTTGGATGTTAATTGAACAGATAAATTACAAAAACCTTCCTGTAAAGTGTCTA
AGTTTTTCACAAGATTCATCGTTATTATCAGCAGGATTTGGAAATAGCTTGTGTGTATGG
GACACAACAAATTTTAAATTAAAATGTGCTCTTAGTGCGCCTGCAATAATGGATGGATCT
GTTAATCGTGTTTTGATAACTTTACCAGAGGAAAATTCAAAGAAAAATCTAAACGGAAAT
AAAACAAATTTCATCGAGAAACGACATAAAATTTTGCAAATGATGAATGCAATTATCAAT
GATCCATCTCAAGTGCTTGTTAATAATCTTACACAAGAAAGGAGTAGAATTTTTAAGAGA
AAATTTGACGAAGGAGTAAAGTCACAAGAATTGAAATGCAACGAAAAAAAACTTATTTTT
GATAAAGTAATAGCAACGACTGATTTGAATTTCAATGAAAAACTTCAAATTCTTCACAAA
TTGAACATTTATTACCATATTAGTAATCGTGTAGAAAACGATTTTATAGATTTTATTTCA
AAGAATACATATGATGATATTCATCTTTATAAAGGTCTTCAACAAGGTGTCCTAGAAATC
AAAAACGATGACAAATATAAAATTCTTTGGCGTTTTAAAACTTGGAGAATGCGAGATGTT
AAAAGAAATAGAAAAATCATAACTGTTCGAAAATTACTCAAAAAGCCAATTCGTGAAGAA
GCTTTAAAATTAAAGAAAGCTGAGCCAGGACAAAAGGCGTTACCAATCAAAAATATAAGC
AACATTACGAGCACATTTTTCTGCACAAATGATTTGTCGCATCTATCAGTCGTTACCACA
TCGACTAGACTTTTAATATGGGATTTGCTTACACTTAAAATTCAATCATCTTTCAAAATT
CAGTGTTTGAAATTGGCTCATGATCCTTTGACAAACTTAATTGCAATATTTACAAAACAC
AATGAACTTTTTATCATTCATCCATTACCTGCAATAACTATTTTCCATCAAAAGAATTTG
CCAAATATTCTTGCATTAATTTGGGTACCTCGAGAAATTCCAAAAATGCAATCGTTGAGT
GTCAATTGGCAAGCAACTTCACAACTTTTGTTTTTAAATGAAAACCAAGAAATTTGCACA
TTAAGTTCTCCAACTGATGAAGATGAAACAATTGATTTAACTCCTTACATGAATGAAACA
AACGAAGTCACAGCATCTACAACACCTTTTGCAGCTCTTATATCGAAAAGGCAAAATTAT
AAAGATTCAAATCAAATCACTGTTAGACACATGCTTTCGAATGATTCTGGAAGCATCAAA
GAGGTAAGCAAATATTAA
>g5194.t1 Gene=g5194 Length=965
MCLDIDYHYNNQNSIINTNSLENHNQNIDNNSITMESTTDLKYKVKSMCGGSVIEHKPLF
DSSGENIYVVRKDKLRIYSVETGEIVTELDDNKDGQIIGIYLEDNQTNQCIITCTTNGTI
AFRKLKSNVITEKKKLNFKFSILNKFLVTTIDGKFHGLIHYNDEKNFSQLTLIELSTNKI
VHRFDTPFLTNQADVKMKFADGNGIIAIISKTHLFIINKETLEIIMHSAPKLLSVVVCHP
EQKIIATGDVYGKIYLWSNVFNKMPVKTDLHWHHMVVLSLAFSQSGTVLYSGGAECVLVK
WHIRETTLGKNFLPRVSGGIKQISVDTLHDKIAICMDDNSIQIINSNLTQLKTIQDFTQI
SPYDLGLNQPFPAGICINPKNNHLVMNGKIGHLQFFSTKTMRLLFNIDITLQNVIPRQRE
FNQFSTEVTKVAFSACGMWMATYECWNDRIHSLDSRIKFWSFDNIKQTYSLHTQIEYPHE
KKVVAMQFANIEKSIICASAGLDRVVKIWSLEASEEIQNPKMIWMLIEQINYKNLPVKCL
SFSQDSSLLSAGFGNSLCVWDTTNFKLKCALSAPAIMDGSVNRVLITLPEENSKKNLNGN
KTNFIEKRHKILQMMNAIINDPSQVLVNNLTQERSRIFKRKFDEGVKSQELKCNEKKLIF
DKVIATTDLNFNEKLQILHKLNIYYHISNRVENDFIDFISKNTYDDIHLYKGLQQGVLEI
KNDDKYKILWRFKTWRMRDVKRNRKIITVRKLLKKPIREEALKLKKAEPGQKALPIKNIS
NITSTFFCTNDLSHLSVVTTSTRLLIWDLLTLKIQSSFKIQCLKLAHDPLTNLIAIFTKH
NELFIIHPLPAITIFHQKNLPNILALIWVPREIPKMQSLSVNWQATSQLLFLNENQEICT
LSSPTDEDETIDLTPYMNETNEVTASTTPFAALISKRQNYKDSNQITVRHMLSNDSGSIK
EVSKY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5194.t1 | Gene3D | G3DSA:2.130.10.10 | - | 422 | 598 | 0.000 |
| 2 | g5194.t1 | PANTHER | PTHR44215 | WD REPEAT-CONTAINING PROTEIN 75 | 48 | 942 | 0.000 |
| 1 | g5194.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 537 | 561 | 0.220 |
| 12 | g5194.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 226 | 311 | 9.230 |
| 13 | g5194.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 452 | 570 | 10.153 |
| 7 | g5194.t1 | SMART | SM00320 | WD40_4 | 218 | 258 | 12.000 |
| 6 | g5194.t1 | SMART | SM00320 | WD40_4 | 263 | 302 | 0.990 |
| 8 | g5194.t1 | SMART | SM00320 | WD40_4 | 306 | 345 | 390.000 |
| 10 | g5194.t1 | SMART | SM00320 | WD40_4 | 468 | 510 | 1.000 |
| 9 | g5194.t1 | SMART | SM00320 | WD40_4 | 523 | 561 | 1.100 |
| 5 | g5194.t1 | SMART | SM00320 | WD40_4 | 772 | 808 | 350.000 |
| 3 | g5194.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 60 | 307 | 0.000 |
| 4 | g5194.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 235 | 567 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5194/g5194.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5194.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K14552 (NET1-associated nuclear protein 1 (U3 small nucleolar RNA-associated protein 17))
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.
