GgaINT0093100 @ galGal3
Intron Retention
Gene
ENSGALG00000007260 | F1NB51_CHICK
Description
NA
Coordinates
chr2:14301531-14304869:-
Coord C1 exon
chr2:14304764-14304869
Coord A exon
chr2:14303342-14304763
Coord C2 exon
chr2:14301531-14303341
Length
1422 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAAT
5' ss Score
5.18
3' ss Seq
TTTCTTTTTTTAATCTTTAGGAG
3' ss Score
10.41
Exon sequences
Seq C1 exon
AGACATGTGACGCAGTCCAGTGGTAATCGAAAATTCAAGTGCACTGAATGTGGAAAAGCTTTCAAATATAAACATCATCTAAAGGAACACCTACGAATCCACAGTG
Seq A exon
GTAAATAAAACAAGCGCTGAATTATGTACTAATGCTACCATTTCTACTCTGTATAACTTTGATGCAATGTCAGTCTTGTAAGTGTAAGCTTAAAATACTAGGGCTTTCCTTTCACTTTCTCTAAGACTCAGTACCTACTGACTGCAGCCTTCAACTGTGCACAGAAAATATGTAGGATAACTCAAGAGGATTTACATTTGCAACTTGAGCTCTGATATTTAAGGAAGCTTCACACGTGGCAGAAGAAATGGGGCATCTTTCTGGTCTTTCTCGCTTGTCCGTTTTTTCTCAGCGTTTGCAGACCACTTAGCTAGTTGTGAGCCTTGCTAGAAAACTTTAATTGATAGCAATCAGGGTATAGCGACTATACTTCCTTACTGTGGCTGCTATTTTCCCCAGTACATGATGATAAAAATAGCCTCAGAGCACAAATGTGAGATTGTCATACCCATCCCAGTGGCTTCAATTTATAAATAATTAACTTATAATGTTATATATTTATAAATACTATATAATAATAAGTAAGCCTCAATTTCTCTATTTGACCCAATTTTACTCACTAGCAGTAAGTCTGAAAACAAGGTGTTGGGCCATCTTTTCCTTTCTTATTGGTTGCTCAGCCATGGTAATAGCAATTAAGTGCACTTAGAAGCCCTTCCTCAGGAAACCTCATCTTCATTTCATTTACACAGAGCAGTGGCATCTGCTCCTGTGCATGGGAAGGCATTAGCCAACAGGCTTTTCAGTCCAACACAGGCCAGCTGTTCTTTTTCCTTCTTTTCTTTCTTCTTCCTCTGTAACCCAGGGCCCCTGAAAAGTCACTTCTGTCTGTGGCTGTCATGATTGCATCGTTGTATGCATCTTCCCAACCATTCAGCCCGGGGTACACCTCTGAAGGCAAATGTTCAGCTGCTTTATGCATGTGTCTAGTTTCCCTCAACTCTTCATTTAATTATGATTTGCATTTATGCCACTTATAGTTCTTCTTTGGTTAAGCATATCTATGTGTTGTTTTTTTTCTGAAGTGGCTTATGCTGCTTCTGACATTAGTAGTGCTGTTACTGGAATGGAGCTTAATGAAATCTTCAAGTACCACATAGACTCATTTATGTGATATGTAGCCAGTTACTAGAAAGTACTGGAATGTGTCATGGTCACATAGGTGCCATTCTGTGTGTACTGTTGGGTCACAGTGAGACTTAGCACAGGACCCTGGGATCGGAGCTATAGATGATATAATTGCTCTTAGTCTTCGGTTCACTGTAAAGGACTCTTTTCCCTAGGACTCTGAGGGGTAATTTTAATATATTCTTTTCTAATTACTATTGTTTGATGAAGCTACATTGTAACCTAGCAAACTATTGCATATGTCTTTTTTCTTTCTTTTTTTCTTCTTTTTTGTTTTCTTTTTTTAATCTTTAG
Seq C2 exon
GAGAGAAGCCATATGAGTGCCCAAACTGCAAGAAACGTTTTTCCCATTCTGGTTCATACAGCTCACACATAAGCAGTAAGAAGTGTATTGGTTTGATGCCCGTGAATGGTCGAGCTCGGTCAGGGCTCAAGATGTCTCAGTGCTCCTCCCCTTCCCTTTCTGCATCGCCCGGTAGCCCAGCAAGACCACAGATACGACAAAAGATAGAAAATAAACCCTTGCAAGAGCAACTTCCTGTTAACCAAATTAAAACTGAACCTGTGGATTATGAATTCAAGCCCATAGTGGTTGCTTCAGGAATTAATTGTTCGACCCCTTTGCAGAATGGGGTTTTTAGTGGTGGTAGCCCGTTGCAGGCAACCAGTTCTCCTCAGGGTGTGGTGCAAGCTGTTGTTCTGCCAACAGTGGGTCTGGTGTCTCCCATAAGCATCAACTTAAGTGACATTCAAAATGTACTTAAAGTGGCAGTGGATGGTAATGTAATAAGGCAAGTATTGGAAAACAATCACGCTAATCTTGCATCCAAAGAACAAGAAACAATCAGCAATGCATCTATACAACAAGCTGGCCATTCCCTCATTTCAGCTATCAGTCTTCCTTTGGTTGACCAAGATGGGACAACCAAAATTATCATCAACTACAGCTTGGAGCAGCCAAGTCAACTTCAGGTTGTTCCCCAAAATCTAAAAAAAGAACATTCTGTTCCTACAAACAGTTGCAAAAATGAAAAGTTACCAGAAGATCTTACGGTGAAGTCTGAGAAAGATAAAAACTTTGAAGGAGAGACCAACGATAGCACTTGTCTTCTTTGTGATGACTGTCCAGGAGATCTTAATGCACTTCAAGAATTAAAGCACTATGAAACAAAAAATCCTCCTCAGCTTCCCCAGTCCAGTGGAACAGAAGCTGAGAAGCCCAGCTCCCCTGCCCCATCAGAAACTGGGGAGAACAACTTATCTCCTGGTCAGCCACCCTTAAAGAACCTTTTATCGCTCCTAAAAGCATATTATGCATTAAATGCACAACCAAGCGCAGAAGAGCTTTCAAAAATTGCCGATTCCGTGAACCTACCACTGGATGTGGTAAAAAAGTGGTTTGAAAAAATGCAAGCTGGACAAATTTCTGTGCAGTCTTCTGGACCATCTTCTCCTGAACAAGTTAAAATAAGCAGTCCCACAGATAACGATGATCAAGCAGCAACTACAAATGAGAGTGAACCCCAGAACAGCACAAACAACTCACAAAATCCGGCCAATACAAGTAAATCTCAGACTTCATCAGGGGGATCAACTCAGAATGGTTCGCGCAGTAGCACGCCATCCCCATCACCACTAAACCTTTCTTCATCAAGAAATTCACAGGGTTATACGTACACAGCAGAGGGTGTACAAGAAGAGCCACAAATGGAACCTCTTGACCTTTCACTACCAAAGCAACATGGAGAACTGTTGGAAAGATCTACCATAACTAGTGTTTACCAGAACAGTGTTTATTCTGTCCAGGAAGAACCTTTGAACTTAACTTGTGCAAAAAAAGAACCACAAAAGGACAACAGTATTACAGACTCTGATCCTATTGTAAATGTAATCCCACCAAGTGCCAATCCCATAAATATTGCTATACCTACAGTCACTGCCCAGTTACCTACAATTGTTGCCATTGCTGACCAGAACAGTGTTCCATGCTTGAGAGCTCTTGCTGCCAATAAGCAAACCATTTTGATTCCCCAGGTGGCTTATACGTACTCTACTACAGTTAGTCCTGCAGTTCAGGAAACACCACCAAAACAGACCCAAGCCAACGGAAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007260:ENSGALT00000011752:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.563
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PU(38.5=27.8)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=2.5),PF0004624=Homeobox=WD(100=8.1)
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:
GGAACACCTACGAATCCACAGT
R:
CCATTCTGCAAAGGGGTCGAA
Band lengths:
351-1773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]