DreINT0099183 @ danRer10
Intron Retention
Gene
ENSDARG00000104914 | muc5f
Description
mucin 5f [Source:ZFIN;Acc:ZDB-GENE-110411-240]
Coordinates
chr7:72097851-72099627:-
Coord C1 exon
chr7:72099449-72099627
Coord A exon
chr7:72097921-72099448
Coord C2 exon
chr7:72097851-72097920
Length
1528 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
ACCATTTTTCTTTCATTTAGATT
3' ss Score
10.33
Exon sequences
Seq C1 exon
GATCTTTGAGAAATGTCACAGGTTTGTCCCAGTTGAACCATATGTGTCAGCATGTACATTTGATGTGTGTAACAAGAGCAATGCAACCATTGGCTGTGCCAGTCTACAGGCCTATGCTCACGAATGCGCAATGGCAGGAGTTTGTGTAGACTGGAGAGATGCGACAAATGGAGTTTGTG
Seq A exon
GTGAGTATGTTTATTATCTTAGTTGCCTTTTACAATAAGTCTCCATTAGTTAAGGTTTTTACTAACATGAACTAATCATGAACAGTACTTAGTGAAGTTTATTTATGAACTACTTTCGAGAGGATCACGTGCTATTGATTGTTCACAGCTGTTCCAACTTTAGCTAATGAGTTATCCTTTCAGACTATCTTTAACTCACTATAAATCACCAGAGTTTTCTCATCTCAATATCTTTGTCTTGAAGAAACCCCCCCACCCAACTCTACTTTCCCTCCTTTCAAACGGGCGACATGATGGCCAGTGATTAGCGCTGTTGCCTCACAGCAAGAATGCCCCTGGTTTAATTCCCTTCCAAACCAGGCGACATTTCTGTGCAGAGTTTTGCTCATTCTCCCCTTGCTCGCGTGGGTTTTCCCCGGGTCCTCCGGTTTCCTCCCACAGTTCAAAAACAAGCACTCTAAACAATTAATCCAAAATATTTTAGCCAAACTCTGAATACACCTCAGCATCCATATCCGACATTTAGCTACAATAAGCAAGAGGGGGAGTCATTGAGATCTACCTGAGCTCAAACTCCCCTCTCGCCTTGGAACAGGAGGGAGCCCAGGGCTCGAGAATCTTATAAGCTCAGGGCTCTCTCCCAGGACAGCACGCCAAGCAAGCTTTATTATCAATCATCAGCTAAGTGTGAACTCTTGAAATCACTATAAATAACCAGAGTATCTTACCTTAACCATCTTCGTCTTGAAGAATCCCCCTTCCACCCCTACTCCTCCTCTTTCTTTGACAGGACAGCACAGAGGCCCAATGGTTAGCACCGTTGCCTCACAGCAAGAATGTCACTGGCTCAGATCTTCAACTGGCCAAGTCGGCATTTCTGTGGGAAGCTTGCATGTTCTTCCTGTGTTTGCGTGGATTTTCCCCGGCCTCTCCGGTTTCCTCCCGGAGATCAAAAACATGTGACATAAGTAAATTGACCAAACCGAAACCATAGACGATCGATTAATTCAGTGAATTCTCTGCATAGTTATTCATAATTTACATTCACCGTTATCAAGCAGGCGAGTTCTCGAGACCTACCTATGCTCTAACTCCCCTCTCGCCCTGCAACAGGAGGGAGCCCCGGGCTCGTGGATCTCATGAGCTCAGGGCTTTCTCCCGTGACAGCATGCCAAACACGCTTTATAATCAATCATCAGCTAAGGGCAAACTCTTAAATACAGCATTTATTAATCATATTTCTGCATTTGCTAATGCATTATTAAAATCTGATGTTGTGCTTGGTAACATTAATTAATGCACTGTGAGTTTACAAAGACTATCAATGAATGACGTTATCATGTTTCATTAAGATGAATAAATGCTGTATTAAATGTAGTATTCATTGTTTGTTCATGGTAATAAATACATTTACTAACATTAATATTGCAGCCTTTTTGTAAATTGTGACCAATCGCTTAACATAATTGTTGCAGACAAGCATTTATTATTGTTTCTACAAAGACCTAACCATTTTTCTTTCATTTAG
Seq C2 exon
ATTTTAAGTGTAAAAGCCCACAGACATATTTAGCATGTGGCCCTCAAGTGGAACCAACCTGTGATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104914:ENSDART00000163536:6
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:
PF087426=C8=FE(81.1=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=PU(30.8=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTGAGAAATGTCACAGGTTTGTCC
R:
CTTTCATCACAGGTTGGTTCCAC
Band lengths:
246-1774
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]