GgaINT0046516 @ galGal3
Intron Retention
Gene
ENSGALG00000003578 | FN1
Description
NA
Coordinates
chr7:4401379-4403221:-
Coord C1 exon
chr7:4403042-4403221
Coord A exon
chr7:4401556-4403041
Coord C2 exon
chr7:4401379-4401555
Length
1486 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GTTTTCCTTTTTATCTCCAGTTT
3' ss Score
9.35
Exon sequences
Seq C1 exon
CTGTGACCCAAACATATGGTGGCAATTCTGATGGAGAAGCCTGTGTTCTGCCTTTCACCTACAACGGGAGGACTTTCTACTCTTGCACTACTGAAGGCCGCACAGATGGGCACCTCTGGTGCAGCACCACTTCCAACTTTGAGCAGGACAGGAGATACTCCTTCTGTACTGAGCAGAATG
Seq A exon
GTGAGTCCTTGTCAGAGGGTCTTCACATGCACGTTGTCTTTGTGGAGGAAGGAACCAAAGCACATAGCTGTCTGAACAGTCCTGGCAGTTTGGAGGGACTCTAGGCATGCCTCAGCAACAAAGCAGTTACATGAATGGAGGGCTATCTGGAGTCAGGGCATTTTTATACTTTCGGTATCTTTGGAGGGTGCTCAGGATGACACAGGTGTAGCCTTTGAGTCATGATCTCTGTTCTTCAAGCTGACCATAGAGCACAAATACTTAGTCAAGACAGAGCTTTGGCTCAAAGGATATGTGGACTTTGTCTCTGCTTGGCTGAATTGCTGCAGCATTGCCCATATTAGGTTGCAAAGAAGAGGGTATCCATAGAGTACAACTTGTGCAGTTCTCTTGTCACTGCCTCACTCCTGACAATCTAGCCAGGCTGCCATATATAGCAGTAATCTTAATGTGATTTGTGATTACTGTGATCAAAAGCTGGTGCATGACTAATGCAGCGGCATTCCCACTTGTCTGTGGATGGTCAGCATTCCCTTCACAGCACAAATCTACCTGTGCGGTTGTACTTCCTAGAAAGCCCATCAGGCATCTGTGGAGCAGTATCCAGGCAGGCTTGTCTGCAGTCTGACCTTAGAAAGAATTTTTCACATTCCAACACAAAAATACTGCTTCTTATACTGTACAGGCTTTTTAACCTCTCTTCTACCTCATTTTTTTAATGATAAGCTTTCCTGCACAGCACATACAATACTCTTTCTTTTTAAAAAACAAAACAAACCCAACAAATACAAAGCTAAAAAACTCGGTCCCCTGTCCACATGTGGACGTGCACGCACATTCTTGCTTTAGTGAGGCTTCTTGTGGTATTCTGTGGGGATTAAGAGATATTGATATAGCTAAAAACCTCAGCAAATACCTCCTCGTTTTCTATTATTTGTAAACCAGAGTTGTACAAGAGGTGAATAGTTTATGTAGATTAGAGCCCTCTTTCCACTGGTGCTTGCAAAACACGAAGCTTTCAACCTGCAGAGAGTTTTTGACTTGTCCTGTTGTTAATAAATGAATTGTAACCCTTTCCTGACATCCAAGGTTTTTCTTTAAGCCAAAGGGCACAATTGAGTAATACTCTCAGTGAGATAATACAGATATGCTGAGAACTGTGAGGTTATTTGATTCTCTAGACTTTGGTACAAAGGGTCTGCAAAGCCACTTCCCAAACACAGTGAGCTTTAGTTTTCCATATTCCCCAGGAAATCCCATGGCTGGGTCCAGCAACTCTTTCCAAAGCAATGTTTGAACTGAACTGACCTGTGCGAGGCTTATATTTCCAGATCTGAATTAATTAAATCCAATAAAAGAGGCTAGTGAATAATACCATACAGACTACACATGGGAAAAATAGTGCCGGTTTATTTTTAAAGCTGTTCTCTGCATGCTATGGGAGAGCGTAGGTTTGATTTGCATCCGTTTTCCTTTTTATCTCCAG
Seq C2 exon
TTTTGGTCCAGACACGTGGTGGCAATTCCAACGGTGCTCTGTGCCACTTCCCCTTCCTGTACAACAACCGCAACTATACTGACTGTACTTCTGAGGGACGGAGAGACAACATGAAGTGGTGTGGAACCACTGAGAACTATGATGCTGACCAGAAATTTGGCTTCTGCCCTATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003578:ENSGALT00000005664:8
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:
PF0004014=fn2=WD(100=68.9)
A:
NA
C2:
PF0004014=fn2=WD(100=70.0)
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:
TGACCCAAACATATGGTGGCA
R:
AGAAGCCAAATTTCTGGTCAGCA
Band lengths:
342-1828
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]