DreINT0083305 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13099405-13101840:+
Coord C1 exon
chr8:13099405-13099587
Coord A exon
chr8:13099588-13101705
Coord C2 exon
chr8:13101706-13101840
Length
2118 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
GGTTTACATCAACTCTACAGTTC
3' ss Score
2.61
Exon sequences
Seq C1 exon
AGCCTACAGGACCTCCTAAGAAGGTGATGATTGACAACCCTAAAAAGCGCATGTTGCTCATTGAGAACCTGCAACCTTCTCAGACCTACTGTTATAAAGTGCGTGCCAGCAATAAGGTGGGCTGGGGCCCATACAGAGAAGCCACAATCAACCTGGCATCACAGCCTACCAGACCCATGTCAA
Seq A exon
GTAAGCGTCTCACAAAAATGGGGTGACACTGACAGGGTTCCCACACTTCTTGAAAGTACTTAAAAGTACTTGAATTTCAGATATTTAATTCAGTACACCTTTGTTTGTATAGCGCTTTTACATTGTAGATTGTGTCAAAGCAGCTTCACATTAATGGTCATGATATATTGGACCAGTGTAGTTCAGTTTTTTTAGTGTTCAGTTCAATTCAGTTTAGCTCAGTTCAGTGTGGTTTACCGATTCCAAACCATGCAAGCTAGAGGCCACAGCGAAGAAGGAAAAAAACTTTACCGATTGGCAAAAGTGAAGAAAAAAAAAACCTTGAGAGAAACCATACTCAGTTTGGCACGATCAATTTAATTTCACCGCTGGCCAAACGTCTTATGCAGAGCTGCAGACTCAGTGGCGGAGGCTGGAAGCTGGCCTCAGCGAAGACTCCTCTGTCCCTGAAGCGTCACTGGAATTAGTCTGATGCTCTCCACTCCTCCATGACCACCACAGCAGCTGCTCAGGTTACGGCCTGGTCCAGGATATGGAAACCTTGGGATCATCTCGTCGCTGGTCTTGGATCCAATCAGTGACTTTGCATAGTCTGAGGGCCTCGTGAAGATTATCCCCAGGTGGAAATGGAGAATAAAGAGAATGAATTTAAGACATATGGATTCGAGGCCTGGAAAGTACTAAAAAACAAACACAGGGGTTTGAAAGGGCTTGACTTAAATTTAAAACTACATTTGTTTATGGTTTGATTTCAACAATTCTTCCAATTGTCAAAAAAAGAAATAACACTGACAAATAATGCACATTTTATCAATATTTCAGAAAATGCATTTGAAAATCACCAGTATTGATTTCAACAATTTTGCTAAAGTTCTTTCTTCTGACATTTTAATACTAAGTGTAAGAAAAATGTTATTTTATTGTTTATTTTATTTATTTTGATTGAATTCTTCAAAATGAGTTTTATACACAGCAATGAGTAGAACATAAACTGTATACAGTATTTTTCAGAACACCTAGTAAGCACATTAATAGGGAGGCTGTAACCTACTGTTTATGTATTATGGACAGTTTGTCACAAACATCATTTAAAAAATCAGCAATCAAAGAACATTCCCAAAGACAAAGAAAGAACGAGCCAATGCTATGATTGCATTTTAGACATTGAGGTGAAACAGTGTTATTTATTTTACTATATTTATTTGGGGATATGTAAGTACAATATTAAGTTGCATTTCTTTAAATCTGTTGCAGACTGAAATATTCAAGGGAGTCTGATAATATTATCCCACACATTTTCATCAATGTCACATTTTAAGTTCTAACTCCATGTCTTCTGCAATGAAATCAGATTGTCTGCTTTATACTGGTTTATAATGGAGTAAAATTTGGAAATAAAGTGCTTAACTTCAGCATTTTTAAGAAAGAATTTATGTAAAAAGAAATCAGAGCTATTTAAGGTAAGACTGCTGTGTCTAGTATGAATGAAATGTCTTATCTACAGATATTTAAAGAAATCATTTTTAGGGATATTATGCTTGAAATGTAACTCCTCAAATGACATAAAAATATCCTTATGGAAGAGATCATATATCCTTTATATTCCCATATTTATCCAGCTACCAAATTGAGAGCCCATATAAATATGGTAAAAATTTGTATTACTGGTCAGTGTGGATGAAATAGGCAAGTACTGGTTGTACTTAAGAGATCCTCTGATCTGTGACCATGATTTGACAGCTCTAATATAATAATAATTATTAATAATAATAAATGGGTTTTATTTGACCTTGTAGGGAATTTGGGAATTTTCTGGTCAAGTAAATTAATCAGAGAAACTGGGTTATAAAACTCTTGTTTAATATCTACACAGAGCATCTTCAGACTTATGTACCCAGTCTAGTAAGTGAAATGTTAAGTACAGTAAGGACTTTCATGGTGCTACATATGCAGAGTTATGAATTACAAAAGTGCTTGATTTAAAATTAATGGTGCTTTAAGACGTCCTTGAATTTGCTGTTCATGAAAGCGTGGGAACCCTGCTTTGATTTTAGCTGCCACTTTTGTACTGACTGTGATTGATTGTGCTGTTTGTTTTGGTTTACATCAACTCTACAG
Seq C2 exon
TTCCCATCATTCCCGACATTCCCATCGTGGATGCAGAAGCTGGCGAAGAGTACGACAGCTATCTGATGTACAGTAATGAAGTCCTGCGATCCCCAACGAGCAGCCTGAGGCCTAGCGTCACAGATCTGTCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.217
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=72.6)
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:
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]