Gene loci information

Transcript annotation

  • This transcript has been annotated as Engulfment and cell motility protein 1.

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_2 g5385 g5385.t1 TSS g5385.t1 9310311 9310311
chr_2 g5385 g5385.t1 isoform g5385.t1 9310559 9312833
chr_2 g5385 g5385.t1 exon g5385.t1.exon1 9310559 9312119
chr_2 g5385 g5385.t1 cds g5385.t1.CDS1 9310559 9312119
chr_2 g5385 g5385.t1 exon g5385.t1.exon2 9312180 9312754
chr_2 g5385 g5385.t1 cds g5385.t1.CDS2 9312180 9312754
chr_2 g5385 g5385.t1 exon g5385.t1.exon3 9312807 9312833
chr_2 g5385 g5385.t1 cds g5385.t1.CDS3 9312807 9312833
chr_2 g5385 g5385.t1 TTS g5385.t1 9313269 9313269

Sequences

>g5385.t1 Gene=g5385 Length=2163
ATGTTACCATCAAGAATGCCTGCTGTTCGTGATGCATCGATTGTAAAAATAGCTGTAGAG
GCACTAGCCGCTGGCTTTTTGCCTCAACTTATTGAATTCGATCAGCGGCAACCACTAACT
AGTATAATAAATGATATTTGTAATTCTTGGAATATTGAAGATTCACATAATTATTCCTTA
AAATTTACTGAACAAAGCAACAAAGGCTATGTGACAGAGAAAAATCGATGTGGTGTTAAA
AATGGAACTGTATTGAAATTAAATTACAGTGCAACCAAAACAGTCACAGATTTTCTCGAA
ATTTTTCGTAATGGATCCGTTATTGAGCAAGCAAAATGTTTACAGAAATTGGCTAGTCTT
TCTTCTGATATCACTTTTGCGATTGAATTTATCAATAAATCTGGCCTAGATTTGCTCATT
AAAATGATTGAAGACGAAAAATGTATTGGTGAACGGCTTGAGTATGCACTTCGTTCATTT
GGAGAATTGATGGATCATGGAACAGTATCGTGGGAAATTTTAAGTGATGCATTTGTTAAT
CGTAATATTGCTGCGATATCTAATTCAAGTAATTCACCACATCCCATTCCTCCACATCTC
ATTGCTTCATCTTTGTCAATTCTTGAAAATGTCGTTCAAAATAGTAGCCGTTATGCTCTT
GTTGAACGTTCTGTGACTTTTGATACTCTTTTGAAACTTCTTCGCGAACAAAATCCAAAT
ATTCAACAAAATACCATTGCTCTCATAAATGCACTTTTTATGCGTGCAGATGAAGCTAAA
AGAAAAATAATTGCAAGCACATTTAGCACAAAGCAATATAGAAGTACTCTACTTGATAGT
TGTGTATTGAATGCTCAAATTGGAAAAGAAATGACTCATCAATTAAGCGTCTTACAATCA
TTGACACTTGGTATGCTGGAACCAAGAATGAATGACAGAAATGTTGATGCAGATGCACAA
GAGAAAATTAAAGAATTACGAAGAATTGCATTTGAAAATGAAAGTGTTGAAAATGATTCA
GCCACAGCACAAAGAAATAAAGGACCACAACAGCAACAACATTACAAAAAGCTTGGTTTC
AAATACGATGTTAATCCAGCGCAAGATTTTATGGAATCATCATTGCTCGCTCTCGATTGC
ATGATTTATTTTGCAAGAAATCAAACTCAAATGTACACAAAAGTTGTTCATGAAAACAGT
TGCAGATCAGACGAATATGAATGTCCCTTTGGTAGAACAAGTATTGAACTTGTTAAACTT
CTCTGTGACATTCTTAAAATTGGTGATGACTCTTTCTCTAATAGAGATCAATTTCATCCC
ATGTTCTTTACTCATGATCATCCATTTGAAGAATTCTTTTGTGTATGCTGTGTGGCATTA
AATCGGACATGGAAAGATATGCAAGCCAAAAATGAAGATTTTTCTAAAGTAATTGACGTT
GTAAGAGAGCAAATTATTAAATCCCTTGAAACTCGTCCTCGTGACTTTGAAAGTTTTAGA
CAAAAAATGGCTGAATTTTCATATGCTAAAATCACAGAATTAAGGTATCAAAAATGGGTT
GATCGTAAAGAATGTGAATCAACAGCATCAGCAATTATTGCTCTAAAAGAAAAACTTCGA
CCTGAAATCATGTCAATAATTCGTGAGCAGCGACTTGGTTTTCTTGTTGAAGGCACCAAA
TTTAGTAAATTTAATCGTGGTGTAAGAGCAAAAGATAAATTCTGGTATGTTCGTCTCTCA
TCAAACTACAAGGTGCTTCATTATGGAGATTGCGATGAGAAAACTGTTCCTTTACATGAA
GAACTTAAGAATGAGTTAAGAGTAAGCGACATGAGACAACTGTTGAAAAATAAGGATTGT
CCTCATGTGAAAGAGATTAAAAAATTAACAACATTATTCTCAATTGTCTATGAGGACAAT
AGTGAATCAAAAACTCTTGACCTTGTTGCACCTGATGAGATTTCATTCAATTATTGGGTT
GATGGGATCGCGTGCTTATTGGGTCTTCCAATGGAAAGTAAGCAAATGAAGGAAGATTTT
GAGACACTCCTCTCTATTGAAATCAAATTGAGGCTGTTAGATACTGAAGGTGTTGATATA
TCAAAAGAAGCACCAGAAATACCACCTGAACCAGAAGACTATGAATTTAATTTTGAGGGC
TAA

>g5385.t1 Gene=g5385 Length=720
MLPSRMPAVRDASIVKIAVEALAAGFLPQLIEFDQRQPLTSIINDICNSWNIEDSHNYSL
KFTEQSNKGYVTEKNRCGVKNGTVLKLNYSATKTVTDFLEIFRNGSVIEQAKCLQKLASL
SSDITFAIEFINKSGLDLLIKMIEDEKCIGERLEYALRSFGELMDHGTVSWEILSDAFVN
RNIAAISNSSNSPHPIPPHLIASSLSILENVVQNSSRYALVERSVTFDTLLKLLREQNPN
IQQNTIALINALFMRADEAKRKIIASTFSTKQYRSTLLDSCVLNAQIGKEMTHQLSVLQS
LTLGMLEPRMNDRNVDADAQEKIKELRRIAFENESVENDSATAQRNKGPQQQQHYKKLGF
KYDVNPAQDFMESSLLALDCMIYFARNQTQMYTKVVHENSCRSDEYECPFGRTSIELVKL
LCDILKIGDDSFSNRDQFHPMFFTHDHPFEEFFCVCCVALNRTWKDMQAKNEDFSKVIDV
VREQIIKSLETRPRDFESFRQKMAEFSYAKITELRYQKWVDRKECESTASAIIALKEKLR
PEIMSIIREQRLGFLVEGTKFSKFNRGVRAKDKFWYVRLSSNYKVLHYGDCDEKTVPLHE
ELKNELRVSDMRQLLKNKDCPHVKEIKKLTTLFSIVYEDNSESKTLDLVAPDEISFNYWV
DGIACLLGLPMESKQMKEDFETLLSIEIKLRLLDTEGVDISKEAPEIPPEPEDYEFNFEG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g5385.t1 Gene3D G3DSA:1.25.10.10 - 86 287 0.0000001
10 g5385.t1 Gene3D G3DSA:1.10.8.920 - 533 716 0.0000000
9 g5385.t1 Gene3D G3DSA:2.30.29.30 - 558 669 0.0000000
4 g5385.t1 PANTHER PTHR12771:SF16 ENGULFMENT AND CELL MOTILITY PROTEIN 3 12 717 0.0000000
5 g5385.t1 PANTHER PTHR12771 ENGULFMENT AND CELL MOTILITY 12 717 0.0000000
1 g5385.t1 Pfam PF11841 Domain of unknown function (DUF3361) 125 280 0.0000000
2 g5385.t1 Pfam PF04727 ELMO/CED-12 family 317 477 0.0000000
3 g5385.t1 Pfam PF16457 Pleckstrin homology domain 547 668 0.0000000
11 g5385.t1 ProSiteProfiles PS51335 ELMO domain profile. 318 489 18.9750000
7 g5385.t1 SUPERFAMILY SSF48371 ARM repeat 94 264 0.0000000
6 g5385.t1 SUPERFAMILY SSF50729 PH domain-like 547 666 0.0000000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5385/g5385.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5385.t1.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016477 cell migration BP

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