GgaINT0018403 @ galGal4
Intron Retention
Gene
ENSGALG00000002478 | MATR3
Description
matrin-3 [Source:RefSeq peptide;Acc:NP_989478]
Coordinates
chr13:1825981-1828062:-
Coord C1 exon
chr13:1827941-1828062
Coord A exon
chr13:1826383-1827940
Coord C2 exon
chr13:1825981-1826382
Length
1558 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TGGTTGATTTCTTTTAACAGAAA
3' ss Score
8.07
Exon sequences
Seq C1 exon
GTGTGAATTATGTGGTACCCAAAACAGGGTTTTATTGCAAATTGTGTTCCCTGTTCTACACAAATGAAGATGTTGCAAAAAAGACCCATTGCAGCAGCCTTCCTCATTATCAAAAGTTGAAG
Seq A exon
GTAAGGCAAAAACTTGTTCATTTTAAGTGGCGTGATTCTTTCCTTGGGGAATAGATCTGAATGAGACTGGACTGAAGAGGAAGAAAAAAAAAAAAGCTTCCAAGCAGTTGAAATTGGCTTATTCTATACCTTCTAACTCAAGCTAGACTTCTCCAAAACATCATCCTTTGAAAAAAGTTCCCAGGATGCACATTGCGAAAGATGGGCTCCAGCATTTTTTTGCAAACTTGGATTAAAAAGGGCATTCTGACTGGAGCAGAGGTCAGGCTTAGAGTTAGTGGCACAAAGTAAATACTGGTGACTCAAATCTTCTCCAGGTGGCCCTTTGAGAGTATTTTTAACTGGTCAACAGACCTTAAGCTAAATTTAAATATTTTTGTTAAAAGTCCATATTTGCAACTTCTGATTTTGTGAGCATGTTTGACAGTTTCTAATTGGATGAGGTATCACATGATTGCATGGCATGAATGGTAATGCTGCTGCTGTATTTTTGTATTGTGAGCTGCTTTTAAATACCACTTCCCAGAAAGGGAAGTTCTAAACAAGGCTCTAATAATACAGTGTTCACATCATTTGATTTTATATGGGTTGATTATTGAGCTGAAATCAAAGCCCATGGGTTCTATAGAAAGGAAGAAGGTCGTATCTCAGAGCTGGAAACGTTTGCTTTCTCCTGTGCAATGCTAGGCAATCCAAAAAACAAATACAGGGCTATGCACTTAGAAGGCAGGTGGCACAAACAAACGTCTCAAAGCAAATAACATTATCAAGGAGTAGATGAGAAAATCAACTACCATGCAGAATGCAGAACTAAGAAAAACCCACCTCATCCATCACCCATAGCTTTTTTTTTCTTCTTTTTTTTTTTTTTCTCCCATTTGAGGTACCTGATGTGGGGACATTAAAGGCTTGATGTAAATGGGGAAGTGGGGCAAATGATGCTGAGACTTGTGAGCAACTTACTAACTTTGATACTAAAATGAAACTTGATTTCCTTTTTCCATGGCACAAATAGAAAGCGAGCTGCTTTGGAGTGCCTTGTAATTTTGGTGTGTTTTTAGAACTGGGGAGGGAAGAGGGAAAAGCAGCTTTTTATTTACAATTGCAAAGCACTTCTCTGGCTGGGAATCAAAGTGATACCAAATTCCTCAAATTTCTGCCATAACCCTTCTCTAGAGGGGGGAGATAACAGATTTCAAGCAGGTAAGTGGTGCAGCTACAGTCATAAATCCATGGCATTGGCAAGTCACTCCCTTAGCTTGCCGGCCTGTTAGGCAGACGGTGACGGCAGGGCCACGTAAATGCTTGCATGGCTGCCGTTCAGGTATCTGCTGTTGGTGAGCTGTATGCTCGGTGATGTAATGATAACCCAGTGCTTCAGAGGAGCTCTGCTTCCTTTCTTCTTGTGGAGAAGTGCCGATCCTGTTTGTTACAACCTTTGCAGTCAGCATTTGTAGATTTTTACAGAGTGAAAATGGGGTTAATCTTTATGGACTTAATGTTGTGACTGTAAGAAACTCCTGAGTACATCCAAAATGTGGTTGATTTCTTTTAACAG
Seq C2 exon
AAAATTCTGGATAAAATGGCAGAAGACTACAGGCAAAAGAAAGAAGCATAAAAAGAAGGATGGATGTAAGGAAAACAGTGGCTTTGTTCTTATTGTTAATCTTTTTTTAAAAGCAGTACAAGTAGTAGATGGAAATACTGTATTCTTTTTTTTTGTTTTAGTGAGATACAGTAGATGTTATAGGTCTGTTCATGTGTTCAGTGTTGTAGCAAAAAGCATAAGCAGTTAAGTTAATGAAAAAAATTTGTTCTTCATGTGGGAATGGCAACAAGTTTTCGTTTTGACACTGAGCTATTAAAGAAAAAATCTTGCATCCTTGTGGAACGCTCGTCTATGGCAAGAAAATTTTCTTGAAGTGAAATTTACTACTTTCAAGCTTCGAAAATTCGCCTATCCATTCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002478:ENSGALT00000003907:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCAGCCTTCCTCATTATCA
R:
CGTTCCACAAGGATGCAAGAT
Band lengths:
358-1916
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]