GgaINT0046515 @ galGal4
Intron Retention
Gene
ENSGALG00000003578 | fn1
Description
fibronectin precursor [Source:RefSeq peptide;Acc:NP_001185641]
Coordinates
chr7:4372974-4375480:-
Coord C1 exon
chr7:4375280-4375480
Coord A exon
chr7:4373151-4375279
Coord C2 exon
chr7:4372974-4373150
Length
2129 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGA
5' ss Score
6.99
3' ss Seq
GTTTTCCTTTTTATCTCCAGTTT
3' ss Score
9.35
Exon sequences
Seq C1 exon
GATCTGGCTCTCCCAGCTTCACAAATGTGCAGACTGCGTTGTACCAGCCTCAGCCTCAACAGCCCCAACCTCAGCCACATGGCCACTGTGTAACTGATAATGGAGTGGTGTATTCTTTGGGTATGCAGTGGTTGAAGACACAGGGCAGCCAGCAAATGCTTTGTACTTGTCTGGGCAATGGAGTCAGCTGCCAGGAAATAG
Seq A exon
GTATGAGCTTTTGTTCAGTGCCCGTTCTGTCCAGTGAGATCTGTGGTTTTATTGTGATGGGGGGTCCCTTTGTATGTGTATCATATGTTTGCCAGAGAAGACATACTGGAAAAAGATGCGAGAGGTGAAAAATAAATAGTTGCTTTGGTTACTTGCAGCCTAGTTCTGTAGGGCAGAAATATTTCCCAGTGAGTTATATATATGACTACTAAGGCCCATGGGGAACAACATTCATAATTTTATTCAAACCAAGCTTCAGTAATATATGTTTAGAAAAGAATGTAAAAGAATGACACATCCACAGGACTAAGTCTTCTCTTGGTGTGTATTGGCCCAGGTCCATGGCAGTCACTGTGGGCTCCTAGCAGCCAGTGATTTGACCCAGAGGGGCTGTTGCTGCTTTAGAGCCCTTAGATTTGGGGATTGCTTTAAGCTGGAGTCTAATGCTGTGCCTTGTTAATAGCTGTGACCCAAACATATGGTGGCAATTCTGATGGAGAAGCCTGTGTTCTGCCTTTCACCTACAACGGGAGGACTTTCTACTCTTGCACTACTGAAGGCCGCACAGATGGGCACCTCTGGTGCAGCACCACTTCCAACTTTGAGCAGGACAGGAGATACTCCTTCTGTACTGAGCAGAATGGTGAGTCCTTGTCAGAGGGTCTTCACATGCACGTTGTCTTTGTGGAGGAAGGAACCAAAGCACATAGCTGTCTGAACAGTCCTGGCAGTTTGGAGGGACTCTAGGCATGCCTCAGCAACAAAGCAGTTACATGAATGGAGGGCTATCTGGAGTCAGGGCATTTTTATACTTTCGGTATCTTTGGAGGGTGCTCAGGATGACACAGGTGTAGCCTTTGAGTCATGATCTCTGTTCTTCAAGCTGACCATAGAGCACAAATACTTAGTCAAGACAGAGCTTTGGCTCAAAGGATATGTGGACTTTGTCTCTGCTTGGCTGAATTGCTGCAGCATTGCCCATATTAGGTTGCAAAGAAGAGGGTATCCATAGAGTACAACTTGTGCAGTTCTCTTGTCACTGCCTCACTCCTGACAATCTAGCCAGGCTGCCATATATAGCAGTAATCTTAATGTGATTTGTGATTACTGTGATCAAAAGCTGGTGCATGACTAATGCAGCGGCATTCCCACTTGTCTGTGGATGGTCAGCATTCCCTTCACAGCACAAATCTACCTGTGCGGTTGTACTTCCTAGAAAGCCCATCAGGCATCTGTGGAGCAGTATCCAGGCAGGCTTGTCTGCAGTCTGACCTTAGAAAGAATTTTTCACATTCCAACACAAAAATACTGCTTCTTATACTGTACAGGCTTTTTAACCTCTCTTCTACCTCATTTTTTTAATGATAAGCTTTCCTGCACAGCACATACAATACTCTTTCTTTTTAAAAAACAAAACAAACCCAACAAATACAAAGCTAAAAAACTCGGTCCCCTGTCCACATGTGGACGTGCACGCACATTCTTGCTTTAGTGAGGCTTCTTGTGGTATTCTGTGGGGATTAAGAGATATTGATATAGCTAAAAACCTCAGCAAATACCTCCTCGTTTTCTATTATTTGTAAACCAGAGTTGTACAAGAGGTGAATAGTTTATGTAGATTAGAGCCCTCTTTCCACTGGTGCTTGCAAAACACGAAGCTTTCAACCTGCAGAGAGTTTTTGACTTGTCCTGTTGTTAATAAATGAATTGTAACCCTTTCCTGACATCCAAGGTTTTTCTTTAAGCCAAAGGGCACAATTGAGTAATACTCTCAGTGAGATAATACAGATATGCTGAGAACTGTGAGGTTATTTGATTCTCTAGACTTTGGTACAAAGGGTCTGCAAAGCCACTTCCCAAACACAGTGAGCTTTAGTTTTCCATATTCCCCAGGAAATCCCATGGCTGGGTCCAGCAACTCTTTCCAAAGCAATGTTTGAACTGAACTGACCTGTGCGAGGCTTATATTTCCAGATCTGAATTAATTAAATCCAATAAAAGAGGCTAGTGAATAATACCATACAGACTACACATGGGAAAAATAGTGCCGGTTTATTTTTAAAGCTGTTCTCTGCATGCTATGGGAGAGCGTAGGTTTGATTTGCATCCGTTTTCCTTTTTATCTCCAG
Seq C2 exon
TTTTGGTCCAGACACGTGGTGGCAATTCCAACGGTGCTCTGTGCCACTTCCCCTTCCTGTACAACAACCGCAACTATACTGACTGTACTTCTGAGGGACGGAGAGACAACATGAAGTGGTGTGGAACCACTGAGAACTATGATGCTGACCAGAAATTTGGCTTCTGCCCTATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003578:ENSGALT00000005663:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=51.5)
A:
NA
C2:
PF0004014=fn2=WD(100=70.0)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]