DreINT0083311 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13115838-13117138:+
Coord C1 exon
chr8:13115838-13115993
Coord A exon
chr8:13115994-13116976
Coord C2 exon
chr8:13116977-13117138
Length
983 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGA
5' ss Score
5.24
3' ss Seq
TGTGCTTTGAATTCGTACAGGAG
3' ss Score
6.11
Exon sequences
Seq C1 exon
GGTCTCCGTTCACTCTCAGCACTCCCAGCGCTCCAGGACCTCTGATCTTCACAGCGTTACGTCCAGATACACTGCAGCTGAGCTGGGAGAAACCCCGAAAACCCAACGGAGACATCCTGGGATACGTGGTGACCTGCGAACAGCTGCATGGTGGAG
Seq A exon
GTCAGACACCATCCTGTTTTAAAGTTTCATATGAAACACAATATTGTCTCTGATTTACCAGTAAATACATTCCTTAACAAAGCCAAACCAGAGCATTTGAGCGTCTCAGAGAAACACTGCAGTGAATCATTCCTTATTGAATAATTTCTTAAACAAATCATTTGAGTCAATGATTCAATGATCCATTCATAAAGACAGTTGCTTGCTTGGTTTTTGAATGATTCAGTAGTTTTGAACAAATCTCTTGAGCCATTGATTCACTGATGCATTTGAAAAGACAGTTGCTTGCTTGGTTTCCAAATGATTCAGTAGTTTTGAACAAATCTCTTGAGCCATTGATTCACTGATGCATTTGAAAAGACAGTTGCTTGCTTGGTTTCCAAATAAATCAGTTGTTTTGAAATAATTGCTAGAGCCATTGATTCACGGATGCATTCGTAAAGACAGTTGCTTGGTTTCCAAATGAATCAGTTGTTTTGAACAGATAGTTTGTGCTACTGATACATTCATAAAGACCGTTGTTTGCTTGGTTTTCAAATGAATCAGTTGTTTTAAGCAAATTGTTTGAGCTGCTGATTGATTCATAAAGACAGTTGCTTGCTTGGTTTAGAACAAATCGCTTGAGCCATTGATTCACTGATCCATTTATGAGGACAGTTGCTTGCTTTGCTTCTAAACGAATCTTTAATTTTGAATGAATTATGTGAGTCATTGATTCACTAATCCATTCATAAAGACTCTTGCTTGACTTCTAAATAAGTCAGGAGTTTTAAACAAATTCAGTGAATCGCTCATTGAGACACTGACTTGGTGGCATTTTCTGGCAGTTTTAGTGTCATATACTGTATGTACATCTATGACAGGCCTGAATGATTAAAATTTCGAACACAAAATCACAGTAAGCTCAATGCTGCTTTATTATCGTTGTCAGAAAAATCACACAAAATATCGACATCACTTTTTTGTGCTTTGAATTCGTACAG
Seq C2 exon
GAGATCTTCGCTCCTTCCAGGTGAATGGCAATGCAGCCACTTCATTGACTGTCTCTGACCTGAAAGAAAACATGCCTTACAAATTCAAAGTTCAAGCTCAGACCACGCAGGGCTTTGGCCCAGAGCGAGAGGGAATCATCACCATCGAGTCCCAGGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.564
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(50.0=81.1)
A:
NA
C2:
PF0004116=fn3=PD(48.8=76.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCTCCGTTCACTCTCAGCA
R:
CTCCATCCTGGGACTCGATG
Band lengths:
318-1301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]