GgaINT0045915 @ galGal3
Intron Retention
Gene
ENSGALG00000007511 | F1NM67_CHICK
Description
NA
Coordinates
chr7:7142972-7144367:-
Coord C1 exon
chr7:7144201-7144367
Coord A exon
chr7:7143962-7144200
Coord C2 exon
chr7:7142972-7143961
Length
239 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
TTTCACTCTTCTCTCTCCAGGCT
3' ss Score
11.46
Exon sequences
Seq C1 exon
AGTGCCCAGAGCCTCCCAACATCGCGCTGATCGTAGGCAGCACCATTGCCGGTGTGGCTCTCATTGGCCTGCTGCTCCTGCTGACCTGGCGGCTCTTGACAGAGATCTTTGACCGCCGAGAATACCGCAGGTTTGAGAAGGAGAAATCCAAGGCCAAGTGGAACGAA
Seq A exon
GTAAGAGAGCATCAGGATGACTGCATGCAGGGGGGACGCTGGGAGGATGGGTGTGGAGGAGACATCTGTAGGGGCTACTGCAGCTGGCAGTGCCCAGAGCAGGATGGACTCAGACATTCCTGGTGCCCAGTCATGGAGCAGCTAATGCTGTCCACATCCTTCAAAGTCATGGAAGGATGGGTAATACACTGCCAAAAGTCTGGTACAATCTCATGGGACTTTCACTCTTCTCTCTCCAG
Seq C2 exon
GCTGATAATCCTCTGTTCAAGAGTGCCACCACCACCGTCATGAATCCCAGATTTGATGGGCAATGAACTGGAGTGATGCCTGGAAGCACTAGGACCCACCACTAAATAAGGAAACACCAAACAAGGAAATCTCAGGCTCCCACCTCTTCTTCTTTATTGTGTTGTTTTTAACCCTTCTTCCAAGAGACCACCAGTAGCCAGGTGCTGGCTGAGGGGCTGCACAGTACCTATCCTCTCTCCCAGAGCCATCTGGTTGCACTGTAGGAGGAGGGAACAGCAGTGCCATGGACGGGGCTGCAGAGCAGATCTTACCAACAGGCACTCACCCCAGCTCCAGTTTCCATCTGTCCTAGCTCCTGGTGCTAACTTTACTTTGTGGCAGGACCTTCAGACACCAAGTCCCATAGGGACTTAGCACAGAAAGTGCTCTCAATGAGGAGTTCAAAACTGCTATTTCCCTTCTGCTCCAGCAGGCTCCACTCCTAGGCTGCTCCATGCCCTGCTGCACTGCTCTGCACAGTTACACTTGCAGCTCATTTCTAAACTACTCACTGCTGAGATGGATGGGGAAGGTCTCCTAGGTGGGCTGTCTGCTCCTGTTGCTGTACCTGGAAATGATGGACAGCCAGAAAACAAACAGTGAATCTTATTTTTAAATCATCAGCTTCTCCCCAGTGTTACTTCCCTCTTAGACCTACCTCAGGCTCCTCCACGTTTCTACCTGGGCTTCCATGAGCTTGGCTTACCTCCACCATGCAGCCCACTGCATGGCAGAGAAGCAAAGGAGCAGCGGATTGAATTGTGGAACATCAGTATCAGAGGCGCTGAATGTGTGAAACAGTGCTTGCAGCTTTGAGCTCAACAACAGCTTCTTCTGCCACCTCTAGGACCAGATCTCTTCCCTACTCTGTGAGTCCATCAGACTTGTTGAGGATCAGCCATGCAAAAGACCTAGCATCACAAATAAAATCTCCAGCTCCGTGCTTTTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.238
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=PD(7.5=10.7),PF087256=Integrin_b_cyt=PU(53.2=44.6)
A:
NA
C2:
PF087256=Integrin_b_cyt=PD(42.6=90.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCCAAGGCCAAGTGGAACG
R:
GCTGTTCCCTCCTCCTACAGT
Band lengths:
301-540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]