GgaINT0102984 @ galGal3
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
NA
Coordinates
chr2:139053600-139056600:-
Coord C1 exon
chr2:139056455-139056600
Coord A exon
chr2:139053681-139056454
Coord C2 exon
chr2:139053600-139053680
Length
2774 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TTGTATATTTCTCTTTATAGCCT
3' ss Score
9.17
Exon sequences
Seq C1 exon
GGATGGACCAGACCAAACTTCTCCTCAAATTGGGCAGTTTAGTGGCAATACTGCACTAGAATCAGTCTACAGTACTTCCAATCAGATTCTGATCAAGTTTCACAGTGACTTTACTACTAGTGGCTTTTTTGTACTTAGTTATCATG
Seq A exon
GTAAGTATGACAAATTGTACTTTCTAGTGCCTGTACTGATTACTGCTTTAATAGAATTATTTTTCTAAAAAGTTACTATTATTAATGTGAATGATCACCAGTAGAGTAATGAAAACATATGAAAGACTAACATGTATAATGAAAACACAATATTTTTTCAACCAGTATTTTAAAGTTACTAATAGTCAAGCAAAACCAACACATCCTGAAGAGACTTGAGCAAAAAAGGCCCTGTAAGTTCAAGGTGCTTATCTTCTCTCTACTTACAATGCTTCTAAATTTTCATACAATCTAAGTGAAACAAATAAGTGAACCAAAAAACCCAACCACCACCACCAGCAAAAAAAAGCTTAAATCCCACAATGCAACATCACTTGATTTTTTTTGTGGAGGTTAGATTTGGTAGAGCTGAGCATGGGTTTCATAATTTTGATTCCATATCTAAGCACCTAAATTGCATATTGCAGTTTGAGAAGGACAAACTAACACTTTGCTTTTTTCAAGATATGAATTGATAAATACTAATTAATTGATATATGTTGCTATATATTAATAAAATACATTGTATATACAATATATCAGCAAACACGTGGAAAAAAGCTCATACCTGTTCATAAATTCTCTAGAAAATTTGATCTTTTTTCACTTATTTCTTTTTGTTATTATGTAAATTTTCATTCCATAAATGTGAATCCTGAAGTGTAATAAAGATGCAAACTGATTATTTATGAAGAAACTTAGAACACTTTTTGGATTAATGTTTTCAGAATAAATAAAACTCTCTGTATCCTTGAGTCTGTGGTTGTATTAGCTCCTTACAATTCACAGAAATAAAAGTGAGGTAGAGAGTGGAATCAAATTTTTTGAAACAGATAATCTGGGGTCTAATATGAAACTATGAGTAAATGAGAGACATTTGAGATAAATAATATTTGAATTTTTACTGAATGCGTTTGTAATTACACTGGTGAATTTATTTATTTTCTTCTTTTTAAATATTACAAATAGGACAGCTGTTCCAAGTTTGCTTGGTGTGTTTTCTTTTAAAGAAGTTTAAAGTAGTTTGCTAGCTTTCTGACTTGATAATATAGGTAATAATATAATAATAAAAGATAAAAAGGAGTCGAGTAGGAAAATATAAAATATGGGTGACTCAGTAGCAACAAAAGATCTAGCCTGTAAAAAATATAAATATTTTTGATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATATAAATATTTTTGAGTTGCTCACCTGAAGGGGCTCATTCAATTACTAAAGGATCCAAGAACAGGTTGTATCAAAGATATGGATAAATTAATTTGAAAATCACATCTGCCATAAATGGATGATATTTTTTTATGAGAGATGCTATAAAATAATACGATATGAAAAGGTACAGTGAAAACTAGGAATACATGAGTCTTTGACCAGCCTGAGCATATACCTTAAAGCATAGAAATATACTGTAAACTCTTCAGCCTTCTTTGTATTTCTGTCATACTTGCATTCAAATTGAGGGGAATTGTATCCATATTCAAACACCAGTTCATCCTCCTTGATTGCCTGTAGGAAAAAAAGAAAAAAATTGTGGAGAGAGACACTACTTCTACTTATTCTCCCCACTTGTTTTTTTGTTTGTTTTATATAGATTTTTTTAACCAGTTTTTTTTTTTTTTTTAACCTGGCTGTTACATATATACGTTAAAAATCAGAAAGTCATTTAAAGCGATGTTTCAATTTACAAGTTTTAAAACAAAATCAGTACTCTCCATCTGCAGGTGAGATAATTTGTCTCTGCTCCACAAATATTAATTTTCTTGGAAATTTCATATTCAAGATGCTTCTAATCATAATTTACACTACATCTGGAAAGAATATTTTGGATTCTAAAACTTCTCTTCATCACAGATATCTTCAAGAGACGATAGATTCAGCAGTAGTGTTAGTACTGTGGATAACCTTAGTAAAAAAACCTTAGGATAAACAACACAAAAACATTTGGTTTACAGATGTGATTGCTTACAGAGAAAATCTACAACTACTTCTGAACTTCTGAGTTTATTTATGAAGAGAACCTTACCCTTAAAAATAAATAATTAAGAATGCAAATCCAACTCCAAATTTTTAATTCTGAAATGTGTATGTTTCCTTTCAAGTCTGTTGAAGGCTACAAAGAAAATGAGTATATGTTTATTTTTATCCTGTTTATATATTAGCTGAGTTACATATGCATAGTTGTTTTAATTGCATAAGTATGGGAATGTAAACCCTTTGTATATTTCTCTTTATAG
Seq C2 exon
CCTATCAGCTTCGAGTTTGCCAGCCTCCAACAAGCATACCAAATGCTGAAATTCTAACTGAAGATGACGAGTTTGAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000036594:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(44.8=94.0)
A:
NA
C2:
PF0008415=Sushi=PU(36.2=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]