GgaINT0047402 @ galGal3
Intron Retention
Gene
ENSGALG00000012537 | F1NCD3_CHICK
Description
NA
Coordinates
chr7:37363230-37367131:+
Coord C1 exon
chr7:37363230-37363923
Coord A exon
chr7:37363924-37366914
Coord C2 exon
chr7:37366915-37367131
Length
2991 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CTCCCTCTGCTCTCCCCCAGTCC
3' ss Score
10.53
Exon sequences
Seq C1 exon
CGGAGCGGAGCGGAGCATGTCGGCGCTGCGGAGGAAGCTGGGCGATGAGTACCAGGTGGTGAGCACCTCGGCCAGCGGAGGGGGGCTGCCTCCGCCCCGGGCGGCCCCGCGGGGGAAGCGGCAGCGCTTCGTGGATAAGAACGGGAGGTGCAACGTGCAGCACGGGAACCTGGGCGGCGAGACCAGCCGGTACCTGTCCGACCTCTTCACCACGCTGGTGGACCTCAAGTGGCGCTGGAACCTCTTCATTTTCGTCCTCACCTACACCGTGGCCTGGCTCTTCATGGCCTCCATGTGGTGGGTGATCGCCTACATGCGGGGCGACCTGAACAAGGCTCACGACGACAGCTACACCCCCTGCGTGGCCAACGTCTACAACTTCCCTTCCGCCTTCCTCTTCTTCATCGAGACCGAGGCCACCATCGGCTACGGCTACCGCTACATCACGGACAAATGCCCCGAGGGCATCATCCTCTTCCTCTTCCAGTCCATCCTGGGCTCCATCGTGGACGCCTTCCTCATTGGCTGCATGTTCATCAAGATGTCCCAGCCCAAGAAGAGGGCTGAGACGCTGATGTTCAGCGAGCACGCGGCCATCTCCATGCGGGACGGCAAGCTCACCCTCATGTTCCGCGTGGGGAACCTCCGCAACAGCCATATGGTCTCAGCGCAGATCCGCTGCAAGCTGCTCAAG
Seq A exon
GTAAGTCATGCCATAGAATCGTATCACAGAGCCACAGGACGGGTCGGGCTGGAAGGGACCTCGGGCGTCATAGGACCACGGCATGGTTGGGTTGGAAGGGACCTTAAAGATCACAGAACCATGGAACGGTTGGGTTGGAAGGGACCGCTCAGCCCCACCCTCGGACACCTCCAGGGATGGGGCAGCACAGCTCTGGGCAGTGCCACGGCCTCACCGCCTCTGGGTAAAGGATTTCTTCTTGAGAAATCATTTATATAGTAATGTTTACATTCCACACAGTTTCACGTGTGAATACCTATCAGATACTAGATTCTTTCTCTGAGAGGTAACTGCTTTTTAGCTGGAATTGCTTGGTGTGTATTTTCAAAGGTACCTGCTTGCCTTTCTGGTGCATTTCTGTACTCCTGGAGGGTCCAGCTAGAGAGAACTTCATTTCTGTGGTGCATGGACTTCACAGAAAGCTGAGTGTCAGGGTTAGATGTACAAAGCCATGCTAATGGCCCTGCATGTCTAACGAAAAGTAAGTGTGAGGCATTACCACGAAAAACCGAATATCTGTTTGAGACTCATTATTATGGTTTTATACATAGGTGAGCTGAAATACAGGTGCAGTGGGTGGAAGGGGATATCTTAGGTGACATTTGGCACACACACAGCATCCTGAACATTTCCTGGCTGTGGGAGACGTGGTGCTGGGTGCTCTGGGGGCCCCGCTCTGAGGCAGCCCCCTCTGCCTGTGAAGGATGCTCTTGTTCCATCTGCTGCACCTGGCCCCAGCGATACGCAGCTGCCTTTTGCTTGGAGGCATCTGAAGGTGCAGTGTTTTCACCCCAGTGGGTGTTGCTGGTGGGGTTCTGTGGGCAGCATTGCTGCTGTTTGCACCAAGCAGGACTCCCACTGCATCCCAAATAACGGGGCTGGGATGGTGCCGGGGATGCTCTGAGTGGACACTTCCATTCCTGGTCCTTTCTGTCTGAGCGGTCAGCTCGGGCTGTGGCTCTGTTGTGCTGATACGAGTGAACCCCAATCGTTGGCTCATGTCAGAAGTTGGATGGTGGCACAGTGTGCACTGAGCCCCGGGAGCAGCCCTGGTCCTTGGAGTGCCCTGCGGTGACCCCCATGCCCTGCACATGGAATGAGTGGCGTCCATATGGCTTCAGAGAGGCTGAGAGGTCCTTCTTGTCACAGGTATAAAAAACCCAGCTCTGTTTGTGTCCGAACGGAACAATTCCAATGGAATTTTGGAAGTTGGAGCTCACCACTCGGTGTGGCTCCATGCAATCTGTGCAACTTTGGAGCTGCCTCCACGGGAGTTCTGCTCTGTGCTAATGCTGGAAGAACCCGAGGGCAGAAGGCTTTGCTGCTGTTTTTTGTTTCTTTGTTTGTTTTTCTTCTAAAAGTGAATGGCGCCACAGTGGCCCTTCAGACAAAGTGGTGATCATTGCCCGGGGACAGAAACTGTGCTGTCAAAGTGCTCCTCTGGGAGTTCTGTCCATGGGCACCGCAGTGTGCGCTCAGTGGAGAGCAGTGCAGAGCTGTGCCTGCTTGCTGCTGCCCTGCTGCTTTCCACGTCGTTCTGCTGGTAGATGCTGTGGGCAGTTGGAAAGCCTGAGAATTGCTTTGTATTTTTTCTCCTTGCTAAGAAGACGGTGTGGGGAAAAAAGGAAACTGTAATGGAAAATGCTAAAACAGAGTTACAGCAAAGCCTCGCTCGTGGCGGTGCTCCTTCCGCAGAATGGGTCTCCGTGGTTGTGAAGAGCTGAGAGGAGCGCTGGCAGCGCTGTGCTTTGGTCCCCATGTGATGCTGGGTCAGAACAGTCCCCCAAGGTCGTTTTTCTCCACAAGTGTATTGACCAGAACAGCAAAGTGGTACACGATGGGGGTGGTTATGCCCTGGGCTGAATCCTGCCTGGCGCTCCGGTGCAGCTGTGATGGTGCCTGGGATGGGTTTCCTGGGGCACCGGCGGAGCTGCAGAAGGGGCACAGCAACTTGCCTGTTTTTAACCTTTTCCCCATCATTTTCTCCCTCTGTCAGCATGTCACATTGGATGCATTTCCTTTTCCAGTGTCCTTAAGCTACCACATTCTCTTTAATACCCATTTGTATCGATCCCCTCTCGGTTACCATGTCCATGGTATGGCAACATCTCTTTGCAGTCAGCACCTCAGCCTTCACCACCTCCCATCCTCGGGTTCCTGCCCTGCACGCCCATTTCGGGCAGCTCCCTGGCATCCTGCTGGGACCTGTCTGTGTGCCGTGCTGGCCGCCTTGCCCATCTTCTGCCTTCTGGCTGAAGAGCAGCAGGCTTCTCAGGAGGGAAGGTGCCTCTGGCTGCTGGGCAGATGTTTGTGCAGATGTGCTCTGTGCGTTCCTTGGCTCTGTGCGTGAAGCTGTGGAGGGCGATGTGGGTGCGATGGGTCGCAGTGCTCACATGTACACATGAAAGCCCATTTCTCAGCTGGAACTGCGGGGCACTGGAAAGCATCATTGTTTCGCTGGGATTACATCTCCCAATCCAACCACGTTCTGTGAATATTTTAAAAATAGAAACCAAATCCCAGCGAGGCACTTAATCCCTTTCTGTTCCGCTCTCTCCCTTTTCCTGCGGTCTCTCTGCAGCTCCCACCCAGCCACGGGGCTCCGCAGGGCACGCTGTGGGCAATGGTGGAAATGCACTTCAGGCAGCGATGGAACGTTAATTTGGGGCCCTACGTATGGCAAACACAAATTCATAAAGCTTTTCTTAAACCCAAATAGGGAATAATGGGAAACTGTGTAATAAAAATAATGGTTGGGAAGGGGTGTAATGTTCTGTTCCTTCCTATTCACAGCGCCGCGAGGAGAAATAAAGAGCGAGGAGTAAAGCGGGAGGGAGGCTGCGCTCCTTACAGCTCTCAGTATGGTCTGTGGGTGCTGCGTGAGCCCATGCCTTGATCTGGGGCTTGGGGCCTTCCTCCCACCCTGACCCCTCTCCCTCTGCTCTCCCCCAG
Seq C2 exon
TCCCGCCAGACGCCCGAGGGTGAGTTCCTGCCGCTGGACCAGCTGGAGCTGGACGTGGGCTTCAGCACAGGTGCCGACCAGCTCTTCCTCGTCTCGCCGCTCACCATCTGCCACGTCATCGATGCCAAGAGCCCCTTCTACGACCTGTCCCAGCGCAGCATGCAGACGGAGCAGTTCGAGATCGTCGTCATCCTGGAGGGCATCGTGGAAACCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012537:ENSGALT00000020476:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0100715=IRK=PU(55.2=82.7),PF117553=DUF3311=WD(100=16.4)
A:
NA
C2:
PF0100715=IRK=FE(21.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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]