GgaINT0001428 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:28985317-28987183:+
Coord C1 exon
chrUn_random:28985317-28985574
Coord A exon
chrUn_random:28985575-28986752
Coord C2 exon
chrUn_random:28986753-28987183
Length
1178 bp
Sequences
Splice sites
5' ss Seq
AACGGCTGT
5' ss Score
-6.18
3' ss Seq
CCTCCAACGCATTAACGCAGGAT
3' ss Score
2.81
Exon sequences
Seq C1 exon
AGGATCGGCCCTACAAGTGCTCTGAGTGTGGGAAGTGCTTCAAAAGGAGTTCCCACCTCACCTGCCACCATCGCATCCACACAGGAGAGAGACCCTTTCAGTGTCCTGAGTGTGGGAAGAGCTTCAAACGCAGTTCTGCACTGAAGCGCCACCAGCTCATCCACATAGGACAGAGACCCTTTCAGTGTCCGGATTGTGCAAAGAGCTTTAAACGCAGATCTCATCTCAACACTCACAAGCGCAACCACAAAGCACAAC
Seq A exon
GGCTGTAGAAGCACCCTAAGACTCTGGGAACCTTCAAAAGCAGTTCCAGCCTCGTTAGCGACCGGCACTGCCACAGAAGGTACAGATCCTGCAGAGCCTCAAACTTGTGAGGAGCTTCAGCCAAAACCNNNNNNNNNNCAAGAAACGACAGACAGAGATGTGTGAGGTTTTAAGGGCTTGGTGGGCTCAACACTCTGTTAAAAGCCCCTGGTTGAGTGCTGGCAAGCAGGCAGCCGCCTGGAGAAGGAGGATCAGCTTTCTGCAAACAGCCCTTGTGCTGCTGAATTGCATGATGCCCCCAGCTCCAGCAGCCAGTTCACTCCCAGGTTACTCCTTTAGCATTTATTGGCTCTCTATTCCTATCCCTTCAACACTTTTGAAGCCTTGAGCATAGAGCAGTTGGGAAAAAATTGAAGTAAATGTTCTAAAGGATACATGGATGCCCGCTATCGTTTCCCGTGGGGATGGACACACTGCAAAGTTTTTGGGCAAGCACCTACACCAGAATCAGGGGAACACTCTCATCTCCATATTTCTGTCATTGAAGCTCCACTTCCAGCCCCCAAACCCGGGCTGATCTCCCTGCTTGAAGGAGGGGAAGACCCCTGGATCCCAGATGTGCGTAGCCCAGAGGCCGTGCCAGGAGACCTGGGCCCAGGTGAGTTGCTGGAGGGAGGGAAGGAGGAGGCTGGGGCTGGAAGAGTCCTCTCTGTCTGTGTTTTATTTTGGGCACCATGTGCAATTTCTGGATTTCCTCTTTCCTCCAGCAGGAATTGCGATTACGGATATACTGGAGGATATGCAGGAAAGTGGTGTGGCCGAAAGGCGGTGGGGTAGTGCCTGTGTGGGGGAAATCAGAAGGGATGTTGCAGGAGGCCTGGAGCAAGGTCAGGGTGAGCACATCAAGAAGGCACTGGGAAAGCATCTGGAAGAGAAAGGAAGGAGCCCGCTGGGCTTCAACATAGGTGAAAAGCAGGCTGAAGGACCCAGGAGCAAGGATGTGTGTCCGATGAAAAAGCAGAATCCATGCAGTGCGTGTGGGAAAAGCTTGGAAATAAATTCCAGTGTCATTAACCACCAGTACATGCACACAACGAAGAGCCTGTACAAGTGCTCCGAGTGTGGGAATAGCTTCGAACGGAGAGCCAAACTAACACGCCTCCAACGCATTAACGCAG
Seq C2 exon
GATGGAGAGCCTACAAGTGCTGTGAGTGTGGGAAGAGCTTCAGCAGAAGTTCCCACCTCACCTGCCACCAACGCATCCACACAGGAGAGAGACCCTTTCAGTGCTCTGAGTGTGGGAAGGGCTTCAACAGCAGTTACAACCTTACCTGCCACCAACGCATCCACACAGGAGAGAGACCCTTTAAGTGCTCTGAGTGTGGGAAGTGCTTCAAACGCAGTTATGAATTAAAGTTGCACCTGCGCATCCACACAGGGGAGAGACCCTACAAGTGCTCTGCTTGTGAGAAGAGCTTCAAAAGCAATTCTGAATTGAAGCAGCACCAGAGTACCCACACAGAGGAGAGACCCTACAAGTGCTCTGAGTGTGGGAAGTGCTTCAAAAGCTGTGCTGACTTGAAGCAGCACCAGCGCACCCACAGAGAGGAGAGACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018772:ENSGALT00000035876:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.092 A=NA C2=0.062
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=29.9),PF134651=zf-H2C2_2=WD(100=29.9),PF134651=zf-H2C2_2=PU(42.9=13.8)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(53.6=10.4),PF134651=zf-H2C2_2=WD(100=18.1),PF134651=zf-H2C2_2=WD(100=18.1),PF134651=zf-H2C2_2=WD(100=18.1),PF134651=zf-H2C2_2=WD(100=18.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGAAGAGCTTCAAACGCAG
R:
ACTTCCCACACTCAGAGCACT
Band lengths:
350-1528
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]