Gene loci information

Transcript annotation

  • This transcript has been annotated as WASH complex subunit 5.

Parent gene

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 g26 g26.t1 isoform g26.t1 340453 344121
chr_3 g26 g26.t1 exon g26.t1.exon1 340453 340615
chr_3 g26 g26.t1 cds g26.t1.CDS1 340453 340615
chr_3 g26 g26.t1 exon g26.t1.exon2 340672 343929
chr_3 g26 g26.t1 cds g26.t1.CDS2 340672 343929
chr_3 g26 g26.t1 exon g26.t1.exon3 343985 344121
chr_3 g26 g26.t1 cds g26.t1.CDS3 343985 344121
chr_3 g26 g26.t1 TSS g26.t1 NA NA
chr_3 g26 g26.t1 TTS g26.t1 NA NA

Sequences

>g26.t1 Gene=g26 Length=3558
ATGGAAAAAATTCTTGAATTTACAAGTATTGGGAATGCAATTATATCGGAATTGCTTAAA
ATATCTGAATTAATTCCTATTGAATTTAAAACAAATGATGGAAATCGTAGATATGATGAG
ATTATTATGGATTTCAAATATTTTCGTATTATTGAAACACAAGAGAAGAAAATTGAAAAT
GATGAACATTTATCAGATTTAGATGAATACATTCGTGAAAGCTATTCTAAAATTTTACTA
AGATTTTATTTAGCTTTTGAGAGTGTTTTTGAATATGGAAATAATTTGAACAATTTTATC
AATGATTTAAATGAAGGTGCATTCATTCAAACGACACTTTATTCAATATTTCAAGATGAA
GAAGGTCGTCAATTAATTTGTGAGTCACTCTATCTTTATGCAGTTATGTTGTTAGTTCTC
GACATTTTCATTCCTGGCGATGTTCGTGAAAAACTTCTTGTTAGCTATTATCGCTATCAC
TCACAAAATTCTGATTCATCAATTGATGATGTGTGTAAATTTTGTCGTTCTACTGGATAT
AATCCAAATAATCAATTTCCAATCACACATTTTCAACCGTTGTCATCAACAAAAGGCTAT
CCAGAAAATTATTTTTCTCGAATTCCACTTGATCAAACTTTTGTGAGCAATGTCATTGAA
ACATTAAAATCTGAAGATATTTATCATCAAATGCAGAAATTTCCAGCTCCTGAACATCGA
ACAATTGCTTTAGCTTCACAATCTGCAATGCTTTTTGCTTGTCTATATTTTCAACCCGAT
ACTCTTATGAATCAAGTTAAAGACATGAGGGAAATTTGTGATAAATTCTTTTATAATAAT
TGGATTATATCGATTTATATGGGAGTAACTGTAAATTTATTCGATGCATGGGATAATTAT
AAAGCTGCAAAAACTGCTCTCATAAATACACTTGAACAACAAACTGTCAAAGACATAACT
GCGACAAATTATCAAAATTTGAGAAAAATGATTGAAACTACACGTGGACTTTTAAAAGAA
GGAGTTTTAAATGAAGAATTTTTACTCAAAAATCTTGAAAAAATTGTGAAAATCATCAGA
GAATGCAATTTTAGTGCACGATGGTGGATTCTGAATAGTTCAAATATTTTCACAAATAAA
TCTAAAATTTATAATAATTTGGTGAAATCTTCAGTCAAATTTGATTTTCAAGATCAATAT
GATCTAATTCTCAACATAAGTCAATTAGAACTTATTGTAAAAGGAATAGCAAAAGATTTG
CTTGAAAATAAAGAAACAAAATGGAGCAATTTTAAGAGTGAAGTCAGAGAACGACTTGAA
GAACTCATGCTTTTATTTTCTGGTGAAAAGTCAGTAATAAAAGTTGAAAAGAATGAAAAG
TTAAAACTTTGGTTTGAAGACATTTCTAAAGAAATTTCTATGCTTGAACTTTCACAAAAA
CCAAGAACTGTTGAGAAAAAGTTGATTCAAATGATTGAAGCTTTTTCAGAAGTGCAAGAA
TATCACAATCTTATGACAAATGCTCATGCAAAACAAAGAATCGATGAAGTGACTTCAATG
TTGAATAGTATGATTCATTTATTAAATATCAAAGATTCAATTCTTGTTGATCTTCAAGCT
ATTGGTGATTTTAGTTATGCATGGTATCTTATTGAAGAATTTACTCCAATCATTCATGAG
AGTTTACAGAAAACTCCAAATATTCTTATCAAATTACGTGCACTTTTTATTAAACTTGCA
ACAGCACTTGAAATTCCTCTTATGAGAATCAATCAATGTGGTGGTGCAGAAGAATTTGCA
AGTATAACTCGTTATTACAGTAATGAATTGGTTAAATATGTGAGAAAAATTATTCAAATT
ATTCCACATTCAATTTTTAAACTTCTCAAATCAATCATTGAGCTTCAAACAAATCATTTA
AAAGAATTGCCAGAAAAATTAGAAAAAGATAAAGTGAAAGAATTTGCTCAACTTGACATT
CGTTATCAAATTGCAAAATTAACTTTCAACATTTCTGTCTTTACTGATGGTGTAATATCG
ATGGAAAAAACTCTTGTTGGTGTTATTGAACTTGATCCAAAACAATTGTTGGAAGATGGT
ATAAGAAAAGAATTGGTAAAACATGTTGCATCAGCTCTTAATGAAGTTCTTCAATTTAAT
GAAAAACAAAAGAATGTCAAAGAATTGCAATTGATTGAGAAACTTAATAATTTATCAAAA
ATTATTGCTGGACTAAGAAGCACTTTTGAATATGTTCAAGATTATTTAAATATCAGTGGA
TTAATTATATGGAAAGAAGAAATTATGAGAATAATCAATTTCAATGTTGAGCAAGAATGC
AACAGTTTTAAAAAGAAAAAAGTTCAATTTAGTCGTTTTCAAAGTGATTCAATTCCAATT
CCAATATTTCCTCAACTGCCAAACGATCAATCACTGACATTCATGGGTAGACTTGCAAGA
GAAATTCTTCGAATCACAGATCCAAGAGTGACAATTTATGTAGATTTATTGACTGCATGG
TATGATATAAAAACTCATACTGAATTGATAGATCAAAAGTTTACAAATAAATTATTAAAT
TCAATTGAAGTTCAAGGATTAGTTGGAATTGATAAAATTTATTCATTCATGATAGCAGAA
GATTTAGAAAATGTTCATAAAATGTTGCTAAAACAACTTTTAAAAGAAAAACAATGGACA
GAACTTTTACAAAAATTTAAATCTGATGTCGATGCACGAAGATTGAATTCAAAAGATAAA
CCGAAAATTGAAAATCCTTTTAAATTTTATCAAATTTATATCAACAAGTGCAATAAAGGA
ATTCCAAATATTTTATCACAAATCATGACAATTGGACAAAAAGCAATTTGGAGAAATCAC
ATTGCACATGAACTTGTAACTTCATCAAGAATCAATTGTAGAAGTTTAGTAAATTCTTTA
AGTGCCTTCAATGATGCTTTATTATATGAATTGAGATGCCATGAATTAGATAACAGTAAA
CCAAAACCCAGTGCTCAATTACTACTTGAAGTGAACAAACATTTAGAAATGGTTGGACTT
TATAATCCATTGGAAAAAGTTTATATAAAAATGCCAAAATCATCAAATGAATTTATGAAT
TTCATCGTAATTTTTACATTGTCTCATTTAAATCATTTGGCTTTTGGAAGAAATTTATTA
AAATATAACAAAACAAGCAGCATTTATGCACCAGCAATAATCAAACATAGAAAAGTTCTT
CTCGAGATAATTCATAGTAATAAATTTCTTGATGGACATGTTTTTGCACTCGGAATTATT
ACATTGTTTCGTCAATTTTACGAAAATAATTATTTAATGGAATTTATTGATTTATTTGGA
TCATGTCTCTTTGAAATGTTGGAGTATAATTTAAATTCAAAACACGAGCTTGCAATTGAA
ATTACAAATGGAATTGACTTGATTGAAACAATTTTGACATTGACTGGAATTGAAAGAGGA
TTTTTTGAAGAAATTATTCCATCAACATTACTTGATCAACGTGATTATTTATTAACTATC
ATTCCAAATATGAATTAA

>g26.t1 Gene=g26 Length=1185
MEKILEFTSIGNAIISELLKISELIPIEFKTNDGNRRYDEIIMDFKYFRIIETQEKKIEN
DEHLSDLDEYIRESYSKILLRFYLAFESVFEYGNNLNNFINDLNEGAFIQTTLYSIFQDE
EGRQLICESLYLYAVMLLVLDIFIPGDVREKLLVSYYRYHSQNSDSSIDDVCKFCRSTGY
NPNNQFPITHFQPLSSTKGYPENYFSRIPLDQTFVSNVIETLKSEDIYHQMQKFPAPEHR
TIALASQSAMLFACLYFQPDTLMNQVKDMREICDKFFYNNWIISIYMGVTVNLFDAWDNY
KAAKTALINTLEQQTVKDITATNYQNLRKMIETTRGLLKEGVLNEEFLLKNLEKIVKIIR
ECNFSARWWILNSSNIFTNKSKIYNNLVKSSVKFDFQDQYDLILNISQLELIVKGIAKDL
LENKETKWSNFKSEVRERLEELMLLFSGEKSVIKVEKNEKLKLWFEDISKEISMLELSQK
PRTVEKKLIQMIEAFSEVQEYHNLMTNAHAKQRIDEVTSMLNSMIHLLNIKDSILVDLQA
IGDFSYAWYLIEEFTPIIHESLQKTPNILIKLRALFIKLATALEIPLMRINQCGGAEEFA
SITRYYSNELVKYVRKIIQIIPHSIFKLLKSIIELQTNHLKELPEKLEKDKVKEFAQLDI
RYQIAKLTFNISVFTDGVISMEKTLVGVIELDPKQLLEDGIRKELVKHVASALNEVLQFN
EKQKNVKELQLIEKLNNLSKIIAGLRSTFEYVQDYLNISGLIIWKEEIMRIINFNVEQEC
NSFKKKKVQFSRFQSDSIPIPIFPQLPNDQSLTFMGRLAREILRITDPRVTIYVDLLTAW
YDIKTHTELIDQKFTNKLLNSIEVQGLVGIDKIYSFMIAEDLENVHKMLLKQLLKEKQWT
ELLQKFKSDVDARRLNSKDKPKIENPFKFYQIYINKCNKGIPNILSQIMTIGQKAIWRNH
IAHELVTSSRINCRSLVNSLSAFNDALLYELRCHELDNSKPKPSAQLLLEVNKHLEMVGL
YNPLEKVYIKMPKSSNEFMNFIVIFTLSHLNHLAFGRNLLKYNKTSSIYAPAIIKHRKVL
LEIIHSNKFLDGHVFALGIITLFRQFYENNYLMEFIDLFGSCLFEMLEYNLNSKHELAIE
ITNGIDLIETILTLTGIERGFFEEIIPSTLLDQRDYLLTIIPNMN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g26.t1 PANTHER PTHR15691 WASH COMPLEX SUBUNIT 5 3 1173 0.0
1 g26.t1 Pfam PF10266 Hereditary spastic paraplegia protein strumpellin 12 1120 0.0
6 g26.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 129 -
9 g26.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 130 148 -
3 g26.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 149 240 -
7 g26.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 241 259 -
5 g26.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 260 1037 -
8 g26.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 1038 1055 -
4 g26.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1056 1185 -

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:0071203 WASH complex CC

KEGG

Orthology

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.

Raw TPM values