GgaINT0046845 @ galGal3
Intron Retention
Gene
ENSGALG00000009301 | E1BRV4_CHICK
Description
NA
Coordinates
chr7:17987822-17990100:+
Coord C1 exon
chr7:17987822-17988061
Coord A exon
chr7:17988062-17989455
Coord C2 exon
chr7:17989456-17990100
Length
1394 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGG
5' ss Score
6.17
3' ss Seq
CTCCTTTCTTTCTTCTCCAGGCG
3' ss Score
11.93
Exon sequences
Seq C1 exon
ATCTTTATTGACACCATCCCAAACATCATGTTTTTCTCTACGATGAAACGACCATCCAGGGATAAACCAGACAAGAAAATTTTTGCAGAAGATATTGATATCTCTGAAATTTCCGGGAAGCAAGGTCCTGTGCCTGTCAACTTCTACTCCCCACTTACCAAAAATCCAGATGTGAAAAACGCTATAGAGGGAATCAAATACATTGCGGAAACGATGAAGTCAGACCAAGAATCCAGTAAT
Seq A exon
GTAAGGCATTCTTTGCGCGTGATTCATCCCTTGCTTTCATACTGCTACATCTTTTCATTTTTTCCCTTCAGTTACCCAGGCCTCACAAAAACACTCCAAACCCTGTTTTGGCTTTAGCTGGGGACAGTCTCCTGCCCGTGCTGTGGTCATTAAGGAGTAACATGTAATTGTCAGAGGTGGTAAATGAATCTCAGTTTGAGAAAGAGGAGAGAGAAAAGTGGCAGTGCTAAGGTTTACTTAACGGGGTGTGTGAAGCCACAGAGATGGCGCACGAGTAGCAAAGCAGTTTCCAGAACTGTAAGCAGCTCCATAACACGTTCCTCCTGTCCCCTGCTCGGGCACCTTCCCACAGGGATAAACAGCCTGCCTTGCTTATGAAAAGCCAGAAGGTAGCGCAGCTGCAGAATTCAGATGGCGTTTTATTTGAGAAGCCTGAAGTGTGACTTGCAGATAATAATTCCAGTTTTGATAAGGATTTGTGTCGATCCATGTATGCCACAAGCAGTCCCTGCAAGTGAGACGCATCACGAGCTGCTGTGATTACTGACTTTTTCCACATTACAAGCCAAAGGAAGGATAAATGCGTGCAGAGTCACATATGGCAGTTTTCCACAGGAAAACCTAGCTCTGCCTCCTCCGAGCACGTTCAGTGCAATTAACCCCCTCTTTCATCTCAATTTTTGCAGCTCGCACAGCTTTTAAATGGACAATTCAGGATCAGTTCTTCACCTTTCGTATTGCTGTTTAGCACTGGATGCCCAGTGGTGACAGCCTGCAGGTGGGGAGGGGCCTCCGTGGGACAATAATCTGGCCTCTCCTTCACCCAGGCAGAATTTACACCACAGTGTTTGTTCCTGTGGCCACGTTCCAGCAGCGTGTGAAATGGCTCCGGTTGGAGTCTCATGTTCCCGGTGGCTCCTCTGCAGATCAAGTGTTACCTTCAGCAGGGCTGGCGTGGTTTCAGTGCCTCTGGGCTCCGCTTCCTCCTGCGCATACAAGGAGGGTCTTTGGTTGCTGGCAAGTGCTCCCTTCGGAAGTGGAGCCAGCTGTTTGTGTCATCTACGCACCACTGATATCACTTCCAGAGAATCTCAAAAGCCGCGTTCCCAAAATATACCACAGGCCGTGGCTTCTGAAGGCCGTCACGTCATTGCCTTTGCTTACAAGGCACCTCAAAGCAGCCCCGATTAGCAGTGCTCTTTAGATGGATTCTGGCAGCTTCTTCCACTCGTGGTGCACCTAAGGCAAAAGGAGGGGGAGATCAGGGATGGGATGTGTTGGTCCTTAGGGCAGAGTTGCAGGGTGGAAATGGGAACAGGGTGCTCAGGCCCGATCGCACCCATTACAAACGCAGCTCTGCAGAAATCTCACTGTCTCCTTTCTTTCTTCTCCAG
Seq C2 exon
GCGGCTGATGAGTGGAAGTTTGTTGCGATGGTGCTCGATCATCTTCTCCTCGTAATATTTATGCTAGTCTGCATTATTGGAACATTAGCTGTATTTGCCGGTCGCCTTATTGAATTAAATCAGCAAGGATGAACATCAAATGGAAACTATTTGCTGCCTGGGCTGGCACTGGAATGCATCTTAACTGCTAAAATCTGGCCAGCCATGGAAGTTCCCCTGGGACCGAGCAGGGATACTAAAATGTGCTTAGCACTTCAGAGCTGCTGCTTGGTGCCATTTCACTGCCAAAATGACACGCTTGCTCTACTGCTAGGCTGAATGGCTGCCAGCCAGATTTGGGTCCATTTTACCATTTACTAGAAATGTTAGCGTGTCAATAAGACTGCCTGACTTCGTTATCCGCAAATACTATTCTAGTGACACCAATGGCAGTAGTAAGTTCTATCTGAGCTGTAAATCTGTATCCAGCCTCAGAGCAGCTTTCAGGCTGGTTTCAGTATCAGCTCTGTGTAACACCGGCTGTAACCAGCAGAAGCATCTCGAGCTCCTTGGTAAAGCATCTGAATTCTGTGTACACATCAGAAGTGATCGACTCTCCTGTGCGACTCTACCTGCAGAACTCTTGGTCCAGCAAAGAGGGAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009301:ENSGALT00000022743:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=PD(31.9=57.5),PF0293211=Neur_chan_memb=PU(58.2=57.5)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(39.2=70.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCTGTGCCTGTCAACTTC
R:
TTAGTATCCCTGCTCGGTCCC
Band lengths:
356-1750
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]