GgaINT0027942 @ galGal3
Intron Retention
Gene
ENSGALG00000004960 | FBN1
Description
NA
Coordinates
chr10:11682470-11683565:-
Coord C1 exon
chr10:11683437-11683565
Coord A exon
chr10:11682651-11683436
Coord C2 exon
chr10:11682470-11682650
Length
786 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGTGTATCTCACCTTTTTAGATG
3' ss Score
10.15
Exon sequences
Seq C1 exon
ATAATAATGAATGTGCTACAGAAATTAATTTATGCGGGGCAAAAGGTATTTGCCAGAATACTCCGGGAAGTTTTGTGTGTGAATGTCAGCGTGGCTTCTCACTCGACCAGACTGGGCTTAGCTGTGAAG
Seq A exon
GTAGGTGCAGCACAGTGCATTTAGTTTCATCTCATCTTTCTTTCCCACATCTTTTCTCATCTCGTTGTTATCCAAGGAGAGGCATACAATGTAAGAACCAAATCCTGTGGAGTATGTTCAGATTGAAGGGAGGGTGAGATTTGGAAGTTTATCAACAGGGACATATTTCTCTTCATGGGTCTGAAGACATAGATAACCTGCAGGATTCCAGAGAGCTGATCCTTCTGAGGATACTTCAATTTAGTCTAGAATGTTTTAGTTTAAGAATCACAAGGTCAGTCAACTTCTGCCAAATCCTGCCCGGATTTGTGAGGGGCTCACCAAGGACAGGGAGTCTTGCATCTGCAAGGTGACCTGCTGGGACTTCGTGGGCTGTTGACTTTATTTCTCTGGGTCCCAAGAGCCTTTTCCCAGAACAGGGTTTGGTTTGCTTTGAAAAAAGTTATCTTGGGATTGCTGGGTTTGATGCTTAGGTAAAAGCAAGGAATCCTTCACTTTGGAGGTTGGATCCTTTGGAAAGCCTTTTTTGGCTTTCTGTTCTCTGCTCCACAGCAGATGAAATCTGTGGGTGAATTTGAGCCTTGGTGGTTTTCTGCCCTAAGTTACTTGCTATAGAGCCAGAACTCCAAACCTGAAAGGCCTGAAGTGGTCTCCCATTGCTGATCAGGGTTTTGGAAGATCCTGGAATATCTCTACGCATATGGATGATTACTTCTAACACAGTCCTCAAAGACAGTATAATTTGAGTCTCTCTCCCAGAATTCAGTGTGTATCTCACCTTTTTAG
Seq C2 exon
ATGTTGATGAATGTGATGGAAACCATCGATGTCAGCATGGCTGCCAAAACATAATCGGAGGATACAGGTGTAGCTGCCCACAAGGATATCTCCAGCATTACCAGTGGAACCAATGCGTTGGCAAGTCCCTTTTTATAGTTTATGTATGGAAATGCATGCAGCTACAAGTGAAGGGCAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004960:ENSGALT00000038883:61
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=92.6),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=68.9)
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:
TGCTACAGAAATTAATTTATGCGGGG
R:
TTGCCCTTCACTTGTAGCTGC
Band lengths:
294-1080
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]