GgaINT0002483 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:60560296-60561766:-
Coord C1 exon
chrUn_random:60561656-60561766
Coord A exon
chrUn_random:60561529-60561655
Coord C2 exon
chrUn_random:60560296-60561528
Length
127 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
AGCAGGAACTGGGATTACAGATA
3' ss Score
-2.79
Exon sequences
Seq C1 exon
CTCCACTTCCAGCCCCCAAACCCGGGCTGATCTCCGTGCTTGAAGGAGGGGAAGACCCCTGGATCCCAGATGTGCGTAGCCCTGAGGCCGTGCCAGGACACCTGAGCCCAG
Seq A exon
GTGAGTTGCTGGAGGGAGGGAAGGAGGAGGCTGGGGCTGGAAGAGTCCTCTCTGTCTGTGTTTTATTTTGGGCACCGTGTGCAATTTCTGGATTTCCTCTTTCCTCCAGCAGGAACTGGGATTACAG
Seq C2 exon
ATATACTGGAGGATGTGCAGGAAAGTGGTGTGGCCGAAAGATGGTGGGGTAGTGCCTGTGTGGGAGAAATCAGAAGGGATGTCCCAGGAGGCCTGGAGCAAGGTCAGGGTGAGCACATCAAGAAGGCACTGGGAAAGCATCTGGAAGAGAAAGGAAGGAGCCCATTGCACTTCAACATAGGTGAAAAGCAGGCTGAAGGGCCCAGGAGCAAGGATGTGTGTCAGATGAAAAAGCAGAATCCATGCACTGAGTGTGGGAAAAGCTTGGAAATAGATTCCAGTGTCATTAACCACCAGTGCATGCACGCAACGAAGAGCCTGTACAAGTGCTCTGAGTGTGGGAAGAGCTTCAAACAGAGAGCCAAACTAACCCGCCACCAACGCATCCACACAGGATGGAGACCCTACAGGTGCTGTGAGTGTGGGAAGAGCTTTAAAAGGAGTTCCCACCTCACCTGCCACCAACGAATCCACACAGGAGAGAGACCCTTTCAGTGCTCTGAGTGTGGGAAGGGCTTCAACAGCAGTTACAACCTTACCTGCCACCAACGCATCCACACAGGAGAGAGAGCCTTTAAGTGCTCTGAGTGTGGGAAGGGCTTCAAAAGGAGTTGTGAATTAAAGGTGCACCAGCGCATCCACACAGGAGAGAGACCCTACAAGTGCTCTGCTTGTGAGAAGAGCTTCAAAAGCAATTCTGAATTGAAGCTGCACCAGCACACCCACACAGAGGAGAGACCTTACAAGTGCTCAGAGTGTGGGAAGAGCTTCAGCAGAAGTTCCCACCTCAACTTCCACCGGCACGTCCACACAAGAGAGAGACCCTTTCAGTGTCCTGCGTGTGAGAAGAGCTTCAAACGCAGTTATGAATTGAAGAAGCACCAGTGCATCCACAGAGGAGAGAGACCCTTTCTGTGCTCTCAGTGTGGAAAGGGCTTCAAAAGGAGTTCCCACCTCACCTGCCATCAGCACATCCACACAGGAGAGAGACCCTTTCAGTGTCCCGAGTGTGGGATGACCTTCAGAATCTGTTCTGAATTGAAGTTGCACCAGCGTATCCACACAGAGGATAGGCCCTACAAGTGCTGTGAGTGTGGGAAGTGCTTCAAAAGGAGTTCCCACCTCTCCTGCCACCAGCACATTCACACAGGAGAGAGACCCTTTCAGTGTGCTGAGTGTGGGAAGAGCTTCAAAAGAAGGCCTGATTTGAAGCAGCACCAGCTCATCCACACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021992:ENSGALT00000035534:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.072
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF132401=zinc_ribbon_2=WD(100=11.0),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF0009621=zf-C2H2=WD(100=6.8),PF134651=zf-H2C2_2=WD(100=7.4),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=PU(38.5=3.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGATCTCCGTGCTTGAAGG
R:
TGCAATGGGCTCCTTCCTTTC
Band lengths:
255-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]