DreINT0069168 @ danRer10
Intron Retention
Gene
ENSDARG00000019815 | fn1a
Description
fibronectin 1a [Source:ZFIN;Acc:ZDB-GENE-000426-1]
Coordinates
chr9:15391097-15393923:-
Coord C1 exon
chr9:15393807-15393923
Coord A exon
chr9:15392409-15393806
Coord C2 exon
chr9:15391097-15392408
Length
1398 bp
Sequences
Splice sites
5' ss Seq
CTGGTTGGT
5' ss Score
4.67
3' ss Seq
ACTTTTACTTTTCCCCACAGAAC
3' ss Score
12.13
Exon sequences
Seq C1 exon
GGCTGGCGCTGTGAGAACTGTCGCCGTCCTGGTGCTGAAGTTGATGCAGACCTCATTCAGCCTCCAGTACGCACTGATGCTTTCGACCGATACAGGGAGAACGCTCTACGCAAACTG
Seq A exon
GTTGGTCTTTTTTGTTTTTTTATTATAATCCTTTTTAAATATGTGACTGAAGTAAAAGATTTTAGGGAAAATAAGTAGAGAAGTTATATACCTCTCTGAAAGCCAGTCAACACAAAAATACAACTATTATGCTTTTTTTTAATAAATCACATCCCCCAACAAATATAGAGTAAACTTTTACATTTGAATTTGATTTTTAGCGAGTAAGTTGTCAGCTATGCGATTCCACATGCCACAATATTTTAGTTTTAAGTGATTAAGGTAGAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATATGTATGTTTTTTTTTTTTTTTTTTCTATATATTTATATATATATATATATATATATATATATACGTTCAGGCACATTTAGTGTGTTTTTTTTTTGGTGGTCATGGTGGTCAATACTATGTAATAAGTAGCTGAAATAAGCACAAATGTCAGGGCTTGTCAAAACATCTCAGGGGCCCCAAAATCACCTCAGACCCCTAAGGGTTAATGTATAAGTAATTTTAAAATAATACTATCTTTATCTTTTAATCTTTAATAAATAATCTAATCCTACGATGTGACTATTGTGGAGACACACATTGCGATATTGATGCTCAGCCCTAGACTGTAATGTTTTGTATTTTGAGTAACATCTTTGGTCACTAATGCACAAGCCCAATATACTGACACAATACATAAGTCTAGCATCTTCTTATGTGGGAAAGCTTTAAAATCATTTGCATGTTTTGAATCAGTAATATGAGTGAAATCTACTTTAAAGTCCACGTGAAATAAAAATTTACAATGTTTATTTTGCAAGCAAACTACTGCGTACGCGGAATCCCATGCATATTCTCTTTGTACATCCGAATTAACGTAAACCTGAGTGCACGTGCTCAAGCGCAAAGCCCCTCCTTGCCTCCTCCCCCGTACAAATATGGTAATGAATCCACTTTGGCAAAACCAAACGAAAAAACAATGGCGAAAGCAAGCAAGAAGAGAAACTTCACAGAATGCGAATTGGAGATGCACCTATCAGGAATAGACCGGAGAAAAACTGTGTTATTCGCAAGTTTGTCCTGTCTCACTATATAAAAAGCGCTATAAAATTAAAGATTAATTAAATGAAGAAGTAAATTAACATACTGAAATAAACATCTCAGCAACTTTCGGTTCGTGCAGACTTTGAGGGACAGGTTACATGTGGAATTAGCAAAAAGCTAAATGTAAAAAATATATAGAAAATCTATATCTAATATAGATTTGTGCTGTTATTTGTTGAATATAGTGTAGTTTAACACAGGTTATTTTACCAGATCATTAGACACTGTATTTGCCCTAAAACAAAAACAACTTTTACTTTTCCCCACAG
Seq C2 exon
AACATCCAGTGTCCCATTGAGTGCCTGAGACCAGACCTGTTAGCAGATGCCCATAGCCCTCATGATTAAATCTGCATTTGAATTTTGTCCAATACTGGAGAGGACACGGCCCACAGAGACTATCTAGCACCATCAGTGCCTCTTCATTCTTATCTTCACTCACACTGCAAACTCTGTCCTGCTGCTTCCACCTGTAAAATCACGCCCAGACATCTTTTCTGATTGGCTGAGTCTACTGCCAGTCTCTTTGCTTATGGATGGAAGAACACCATCCGTCTATAGTGAGATTCCAGTGATTTGAAGCTTGTCTGTTGACATAATTTCCACATTTTCTGGAAACTCGAGCATCAGTGGAACATGAGCAGAGAATCAACAAATCTTGCATTTGTGTTTTCCAGTATTATTGGCTGTTGTCTGGTTGTTTTATGATTTGTGATTTTCTTTCATTTGAAATGTATTTTTGTCAGTGATCAAAATGTTCATTGGTGTTATTTTCTAAAACAAGCACTGTCTTACAATGAAAACCTTTGTGCCTTGTAGGCATCCTGTTTTTATGATAATAGTATTCTCCCCTCCCTAATCTGATTGGTTGGTTGAAATCTGTGGCCTTTGTGTCCATCAGGAAGCAAAGGAAAGCACTGTGGTAATGAAGAAGTTAACTTTTTTTTTTTTTATTTATCCCTTTTATGTAATGCATTTGGATGGAATGCAAATTATGGGTGTATACTGTTTTTATGTTTGTGTTTTAGGTGCCAAAGTCTTAACTACTGTGGACAAAAATACTTCTTAATAAAATTTTTTTTACAATATTTAATCTGAAGCTTATTTCAAAAAAAAAGAAAAGAAAACATATTTTCTTTATTTTATTGTTTGACTTATCTTGAATGACCTACAGTACAAATATTGTGTTATTATCTCAAAAAACAAAATAGCACAATTTATGTTTTTTGCAGCACAAACAAATGAGACTTTTTTTTTTGCTGATATTTTTTTGTTGGATGGGGGGCAAACTTCAAAGAGATATTGCAGTGCCATACATCTATGAAAATCATCTCATGTTGCAGCATGATAGTGCGCAGCCTCATGTTGCAAATATCTGTACACAATTTCTGAAAGACGAAAACCTTCCTGTTTATACATGGCCAGCAAACTCACCAAAGATGTCACTCATTGAACATGTTTAATATGCTCTGGGTCAGCGTATACCATAGCGTGTTTCAGTTCCTGCCAACTAGCAACTTCTGACCACCATTGAAGAGGTGTGGACCAACATTCCACAGGTCACAATAAACAACCTTATCGACTATCTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019815:ENSDART00000124346:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.182
Domain overlap (PFAM):
C1:
PF0003913=fn1=PD(8.3=7.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGAGAACTGTCGCCGTC
R:
ACTGGCAGTAGACTCAGCCAA
Band lengths:
352-1750
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]