GgaINT0049796 @ galGal3
Intron Retention
Gene
ENSGALG00000012495 | Q9DEH4_CHICK
Description
NA
Coordinates
chr7:36839001-36840585:-
Coord C1 exon
chr7:36840481-36840585
Coord A exon
chr7:36839106-36840480
Coord C2 exon
chr7:36839001-36839105
Length
1375 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
TGTTATGCTATTCTGAGCAGAAA
3' ss Score
4.57
Exon sequences
Seq C1 exon
CATAAGTACAAGGAGACGTTTGAAAAGACAAAGTCTCATTTCAAGTACGTAGCTGACTCTCCAATTAACAGGCATTTTAAACATGCAACTCAGTTGCTGGATGCG
Seq A exon
GTAAGTGTTAAAGATTTCTCTTAATATGGAATCAAGGGTTGACTGTCCTCATGAATTTGCAAATAAATGAAAATAGATTCAGAGCTAACGATGTCTCAATGTCAGTCTGAAATCAGGAAATGCAAGGTTGTTCCTGTGACCTTCCTGAATGTTAGCACGGAACAGATTATGCAGTAACTAAAAAGTAAAGTCTTGACCCCTCCCTGCTCCATTTTTGAAATTGCTGGAAAAAAAATTTTGCTTTGCTGACCAGTAAAGGGCTGCTAACTTGATAATATTACTTGCTGAGTAAGACTGAGTAAAAACTGACCGTTGATTGCAGTGTGGAAGAAGGTGTAAAGAGAATTAAAACATAGTATTATGAGTGTAGTATAGTCGTAGTATTAAGATAGTATTGTGCCCAAAGTAATCATAGCTCAGTTTCATTTCTGATACTCTGCCTTGAATTTTCTGACTCTACGACTTAGCTGTTTTCTCCTGTAGTGCTAAAGAAGCAATGAATTTAATATATTAGGAATATTGAATTTGCCAATTAGTTGCTAGAAGTGGTACTTAATGCTTAGGAAAAAGACCCCTGAAAATCTGTGTATGGTCTCAGTAAATTCTTATCAGCTTAGAGCTGGCTTACAAACCAGTCCCATAGAGGGGAAAAAAAATAAAACAACCCAGCAATCTGATTAATTGCAGATACCATCACTACAATTTAATACTCAATCTGATGAGCAGTGAACCAGAATTTGTGAAGGAAGATTGTTAATATTTAGTCTTACTGTTCTTTGGTAGAGCAAATAAGGAACAAATTATTATGAAGGACATGGAAGAGAAAAGTCTTAACAAGAGGGGCCCCATACACTGAAATAAACTTACTTAAATGTCTTCTGTTATGTGAGTGATGTTTTCATGATGGATTATAGTTTCTGATTACAGAAAGTCTGACGATAATGCAACTCTAATTCACCCTTCTGTCTCATCATGCTCTCTTTGTACTCAAATCAAGAATCTAGTTCCATACAGGGTTGCGTCAGCAGCTCTTTTTCATGAAGAAAGTAAGCTATAAAATGGCTTCTTGAAGATTGACAGGAACAGGGTTGGAGGTATCCTTAAGTTGTAAGTTAGGCCTTGCAGTGGAAATTTAGAGTCGCATATGTTCTTTGGGTATATTTTTCTAGTTTTTTTCCTTGTTTGTTTATTCTTTGTGTTTTGTGTTATGGTTTTTTTTTTTAAATAAGAAATTTTCTATTTTCGATGTGCACTTCAATCCTTGTCTTTGAATATTTCATATGAAGAGGTTTAAATGATTCAGCTGTGATCTCAGGATCTCTGTCTTCACTGTCTTCTTTTAATTTGTTACAATTTGTTATGCTATTCTGAGCAG
Seq C2 exon
AAATTATATAAAGCTGCCTATGAGAAGCTCAAAGATAGGTACAGCGTTATTGTGGATGATCCTAAGAACCTCCTGGCCAAGTGGGGGACTACACTGAGCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012495:ENSGALT00000020410:108
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:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=31.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATAAGTACAAGGAGACGTTTGAAA
R:
ACTGCTCAGTGTAGTCCCCC
Band lengths:
207-1582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]