GgaINT0145527 @ galGal3
Intron Retention
Gene
ENSGALG00000003742 | CPAMD8
Description
NA
Coordinates
chr28:3801045-3801946:+
Coord C1 exon
chr28:3801045-3801155
Coord A exon
chr28:3801156-3801725
Coord C2 exon
chr28:3801726-3801946
Length
570 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGTTGCTTTGGATGTTTCTGTTT
3' ss Score
-1.25
Exon sequences
Seq C1 exon
CCTTTGAAGCAACTCGTTTCTACAACGTGAGTGAGAACAGCCCCTTGGCGCGGGAGCTCTGCGATGGGCCGACGTGCAATGAGGTGGAGAGCTCAGCAAGCCAGTGGGCTG
Seq A exon
GTGAGTTGCACAAAAGCCAAGCAGAGTTTAGAAAATGGAGCCTGCAGGCACATAGGTCCAGGAGTTCAGAACTCAAAGTGATATTGAGAAAGACGTTCTATTTCAGTTTGTGTTGGTGGAAGGTTTACAAACGTCTGCATGAGAGCGGCATTAAACTCATGACAGCCAAAGACAGCAACTTATTCTGCTCTCCTGTCTCCAAAAGTGACTCTTTTATTTGCTGCAGAGGCAAAATGTAGTGCATAACTCTGGACATACCTGTGGAAAGTGAGATGTTTTAACACACATAAAACTTCTTTCAAATGCAGTTTAGTTTCCTTTCTATAAAATATCTTGCAGTGGAGTTCCTCAATTGACTGAAAGATCAGATTACATTCAATAGTGACAGGATTAACTTGTCCCGGAAACAGTAATCTCTTTCCTATCCTACTTGGTATGGAGATCTGGGGGGGTTGTACTGTCCAATACCTGAAATTCAATGTGAAAATTTACATAGGAGAAGTAAGGAGAAAACTTTCCTCGTCTTTCCCTTCCCTACACTGTGCCACAATGTTGCTTTGGATGTTTCTG
Seq C2 exon
TTTACTTTGCAGGCTTTTCTCACTCCGGGCCGTGCAATAACATTTTTGGATGCTTGGAGGATGAGTATTTTGAGCAGTGCATGTGCTCAAGAGACTGTGGCTATGATGGGGATCCCGTGTGTGGATCAGATGGACAGATCTACCAGAACCATTGCCAAATGGAAGTAGCATCGTGCAGGAACAATACGAGGATAGAGCAGATCCCCATGTCTCAGTGTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003742:ENSGALT00000005938:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076779=A2M_recep=PD(7.7=18.4)
A:
NA
C2:
PF0764810=Kazal_2=WD(100=55.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTTGAAGCAACTCGTTTCT
R:
ACTGAGACATGGGGATCTGCT
Band lengths:
327-897
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]