GgaINT1024596 @ galGal4
Intron Retention
Gene
ENSGALG00000014270 | SCRN3
Description
secernin 3 [Source:RefSeq peptide;Acc:NP_001244270]
Coordinates
chr7:16404276-16407451:-
Coord C1 exon
chr7:16407271-16407451
Coord A exon
chr7:16406091-16407270
Coord C2 exon
chr7:16404276-16406090
Length
1180 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ACACACATGGCTTTTTGCAGGGC
3' ss Score
5.82
Exon sequences
Seq C1 exon
GTCTGTGTTCAAGCCATTCATTTTTGTGCCTGGAATTACTGAGTTATTAAAAACTAGCTCCCCCACATTTGGTCCTGATGACCCAGTCAAGAAGCAACCACGTTTTCAGAGTAAGCCAGATCGAAGACATGAGCTCTATAAAAAACATGAAAGTGCTGCTGTAGTTATGGAAACTATGAAG
Seq A exon
GTATGTTGATTAAATTAGATTTCAGTCCAAGCAGGTGGTTTAATATAAGCTTCTTGCTCACATTTTGTTAATGTGATATCATTAAATGCCCTTAGATGACTGGCGAAGAACATGGTAGTGCTCAAGAAGCCAGTCATTCTTGGAATCTGGCAGGCATATGTTTCTAACACTAAGAACTGAAACTAGTTGTACCCTTATGTGTAGCCCTAGAGAAGTATCTGTGCTGCTTATCTTGCAAAGAAACAGGCCATGTGTATGCCTGTACTAGTCAGACAACAGGGAAATCGTTGAGCAGCTGCAGGCAAATACACAGCTCCTAATACAAGTACTTAACACTCTTCAGGGCCCTGGTCTCTACCAGCAAGGAGGTCGTGCCTTTTACTATTGCTTGGTACGGACAGACTCTCTTATGCATGTCATGGCAGACAACCTTAGGAACAGAACCTCAGTTTGAATAATCCAACTTCTGTTTCTATTTTTTCTCTTATTCTCCTGCTTCCCCCAGAGCTCTTTTCCCCACAAAATCAGCATCTCACTGACAATCGTGGCAACACTGTTACTAGTACATCTTCTCAGGATGCTGTCAATGCTAAGTTGTACCAAATACTAAAACCAGATATATTTAAGCAGCATGTTTACAACTTATAGGTTGTAGGTAGCTCTGGACCCAACAGTTACATGGATCCTAGTTTTGCTGATCTAAATGGTAGCATGGATGTAGCAAGCACTATAGAAATATCTGAAATACACAGAAGTTATTCTGAAGCAGGCAAAATAACAGCATTAGGCAGTAGATATTGAGGAATTTCCCTGGACATCAGAAAAGAAAAGAAGATCACAAAGTTACTTGGGCACAGAGGTAAAACAGGAAGGCAGGTACTTCTAACAGTAGTGTCTCTCCTGTTTACACAGTTAACATGATCTAAAAAACAGAGAAGCCCACTGAAGTTTTGCTGGCTTTAAATGCCTGGAGCAGCTCCCCTCCCAGGCACATTAGTCGAAGTATGTAAGGGAAGTGCAGAGTTTTCTAGGTATTAGAAGAGATCTAAGAAAATTTGCTATAGTGCTAACTTCTACCAATAATTGTAGGGTTAAATAAGAACAGTACAACAGCATTTTGTGGGGGTGAACACTACATATTTTGTATAGCTTCTAGTGAAACACACATGGCTTTTTGCAG
Seq C2 exon
GGCAAAGGCAAAAAAATGCTGGAAGAGATACAGACGCTGGAGAAAAGGAAGATGAGTGAAATGGAATCAATCCTGCAGAATGGATATCTTGACATTAACCAACCGGTTAACCTTTTTTCACAGTGCATAGATGAAGAACTCAAAATATATGGTTAAAATTACTGTTTGAATGGATTGCTTTTATATTTACCTCTTCTAATGGAGTGGCTCTATAGACTACCTTCTATTTTCAATATACTGGTCATTTAGTACAGACAGTTTTAAAGATGCAGATTTCTATTCAGGCCAAACAGCTTTTGGTTGGAGAAAGCAAGGCAGAAAAGTGTCTTTAGAGCAAGGCAGTACCTTTGTAAGTGGCAAAAAGCTGTCAACAGAGATTGATATGCCAACAAATGGATGCAATTAGAAACCAGTAGCTTGACTAAGTTGCAGAACAACCCCATGTTATGCACGTGTAACTTTTATAGTCAAAATAATAATAATTGCAGCAGAATTTCTTGCCTGAATTTAAATGGCCAGGCTGCAAGACTTGCTAAAACGTAGGAAGTATTGCTTTCACTGAATTAATAGGAAAGTGGTATGCAGGTTAAGAAAGATTGATGTTTAACTCTTTGATAAATACTCTCTAAGGTACATTTCATATATGCTACCCCTTTAACATAGGATGAGGCTAAGAACTTAAACTATGCTGAATCCAAATCATAACTTTATCATGATTTGTTGTGAAATCTGATTACTTGAAATTCAGTAAAGCAAGCATCTTGCAAGTTACCACACAATTTTCTTTTCCCTGTTTTTCCCACCGATACCAAAAATAACTTATTTACATACAATATAATTATTTTAAATTAATTCTGTAATATATTTTATGATGTTGTGTGGAAATTTTTTTTTAAATGCTTCCTTTATCGTAACCTTTTAGTTTGTTTGTTTTAAATGAGGCAACTGGAAACGAATGTCAGGGTACATAAGCATATACTCAGTGGAGCACTTAAAAGGACTCTTCAAGTTTTTTCCCCTTCATTTTAGCCATACCTTGTTACTCTAAAATTGCTAGACTAAGAAGTTGATTTAATGAAGCTTTTCCTCCACAGTCCTGCTAAAAGCAGTGGTCAAGCTGTGACACTACTTTTAATAACCATAGCGAGGGATAGAGAGAGCAAAAAAAAGAAGGAAGGTTCTGACTTTGCTACGTGATCAAGCAGGATAAAAATTACAAGTAGAAGGAAAAAAATCTCTGTACATCTGTGGACCTTTAGAAGAGAATGTGTAAAATGAAATGGAGCTTTGAAACTACGGTGATAGTAGGTGACAAGATGCAGTATCTCCACAGACAGACCATTCCTTTGATGAATACTTTATATTTCTCAGTTTCTAGAGTCATCTCAGATGTAAGAAGACTACACGTGTAGTTTTCTTATTTTGCAAGCCATTCTGTATTCCCAGGGGAAAGAACAATCTGGGCAGATATAAGAAATACATATAAAATGAGGTTTGTAATACGCTGCCAAACAAATAAGATGAAGAAAACTTGATAAAATTTGTTCTTTTTGATTAATGTGGTGGTAGCATATTCAGATCCACACAAATAAATGAATGGGTCAGTAACAGTTCTTCAGCTTCCTATTCTAGAGATCATATATTGACTGAGTGGCAGTAACAAGTAAGACTGTCTAAGAAAGTAAGCTTGAGTCAACTGTGAGCCTTTTGTGCATGTCTTACCATCACCACTTCTTAGAAATTCAATAGTACAGTGGATGTTTGTGAACTAGATGGTATATTTAATAAAAATATGCTGTGTTTACCCATTTTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014270:ENSGALT00000023082:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.459 A=NA C2=0.176
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGAAAGTGCTGCTGTAGT
R:
CTGCCTTGCTTTCTCCAACCA
Band lengths:
355-1535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]