GgaINT0093102 @ galGal3
Intron Retention
Gene
ENSGALG00000007260 | F1NB51_CHICK
Description
NA
Coordinates
chr2:14295360-14299659:-
Coord C1 exon
chr2:14299479-14299659
Coord A exon
chr2:14297839-14299478
Coord C2 exon
chr2:14295360-14297838
Length
1640 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTTTGTGCTTTATTTTCTAGGTA
3' ss Score
12.67
Exon sequences
Seq C1 exon
GACGAAAGGCAGGACACTAGCTCAGAAGGAGTATCGAATGTAGAAGATCAAAATGATTCTGATTCAACACCCCCAAAGAAAAAGATGAGAAAGACAGAAAATGGGATGTATGCATGTGATTTGTGTGACAAAATATTCCAGAAGAGCAGCTCATTATTGAGACATAAGTATGAACACACAG
Seq A exon
GTATGTACTAGGAAACGCAGTTTCAGATCTTTGTTTTGTTGATACTGAGTAACTGATAAGCTCAACTGAAATTCAGTGCTCAGAACACATTGTAAGAACAGGGGGAAGTATAGTAGTCCTTATTATAATCCGTGCCCAGCCTTGCTTAGAACCCGTGCTTTATATACTTGTTTGACAGAACTGCAATTCCGTGTTTAAGTTTGAATAGAAATACTGGGATTTTCTTCCATCTGGCTCATGGACAGTCATCTGTGTGCTACAGTATGCAATTAAGGATGTATTATTTCTGATTTATCTTGCCTGGTTTTAAATAAGAAAAGTTATAAATTATAAAAAAGGACTATGTGTATGTATGATACTTTACCATGAAAGCCAGTGTACCTGCATGAAGGATTCTCCAGTTGAGCCAAACTTGTAGTTATCTGAACTTACTAAACATTCGTTGGGCACGGAATCTAATCTCAAAGGAATATCATTTTGGCTTTGGTTTTTATTTCTAATTTTTCATAATTGTTCTTTTTAGTTCCAGTTCTGGTATCTTCAGCCTTCTTTTGAATGAGTGTTGCTCTCTTATTTCTTCAGCGATCTCTTCAAAAATGTCCTTTCTTGTTGCTTAATTGCCTACATTATGTTTCTGCATATCAATGTTTTTATTTCATTTTACTTAAATATACAGTCGAAAACATAAAAGGCTCCCCTTTGTCTTCACCATTTGTTTAAACCTCTTGACTTGTGTTCATTAAGAATATCTTCTATTTTCATACCTTCCCACTCTGAGACTCTCTAATCCTCCTTTTCATAACACAGTTGTGCTTTCCATTCTGCTCTTAAATGAAGTGCAGTGTTCAGAAATGCTGCTTGTTTGCCATGGTGTGACGTGGAGCACAACCAGTGAGCCGCTGTCCCATTGTCTGGGTCTTTTATGTCTGGGCGGAAACTCTATGTTTGTTTTGCCTAACAACTTGGAGTGTTGGAATCAAGATAACGTAGCTGGGTCCATGCTATCTTTATAAGAGTCTCTAAACACAGCAGTGGGAAGGCAAGTAGTAAAGAGGCGAGTAGAAAGCTGGAAAAAAGAGCAGGAAGAAAAGTAGATGAAACAAAGTGGATTTTTCCAGTTGATATACGTGTAGTCAGCAAGTTTGGTACATAAGGCACCTGTCCCAGGCAAGATTTTGGAATGATTTGCCTTTTACCTTTGACATGATACAAGGGCTTGTGCATGAAAGCGAACGTGAAAGCTCATTGATCTTAAATTTCCATCAGGATAGAAGAGCTGAAATGGTTTTGAGTTTCAGTAACTTTTATTGCAAGAAAAATGCCTCCTTTTCTAATCTATTTATATTCACACTTGTTTTGTGCTCTGAGTTGCATCTGAGAATCTGTTTATCTCTTGATGTTCATTTTTCCTAAGAAGGTTACAAATACCTTTGTAGTTTAGCATCGTGCCCTTGTATTCCTATGCAAGAAACCCAGGCTGACAATGCTGAGAGCAAACTGTTAAATACAATTACTTGTTGTTGGCAATACATTCACCAACAGCATATTATTATGAAAGCAGCAGCACAGAGTTTAAAATATTACATTTAAGGAATCCTTTTTTTTTGTTTGTTTGTTTGTTTTTGTGCTTTATTTTCTAG
Seq C2 exon
GTAAAAGACCTCATGAGTGTGGAATCTGTAAAAAAGCCTTCAAACACAAACACCATTTGATCGAACACATGCGACTGCATTCTGGGGAGAAACCCTACCAATGTGACAAATGCGGGAAGCGCTTCTCACACTCGGGGTCGTACTCTCAGCACATGAATCATCGCTACTCCTATTGCAAAAGAGAGGCAGAGGAGCGTGACAGCACAGAGCAGGAGGAGGTGGGACAGGAGGTGCTCAGCAGCGAGCATGCTGGTGCCAGGGCATCGCCATCGCAGATCGACTCCGATGAGAGAGAGAGTCTAACCAGGGAAGAAGAGGAAGATAGTGAAAAAGAGGAAGAGGAGGAGGAAGAAAAGGACGTAGAAGGACTTCAGGAAGAAAAAGAATGTAGAAAACTACAAGATGTAGAGGAGGAAGAAGAAGTAGAAGAAGAAGAAGAAGAAGAGGAAGGGAAAACTGAAGGTAACAAGAACGATGATGTTGTAAATCGAGCAAGCAATGCAGAACCAGAAGTTATACAGAGCAATGGGCAGGTGTCAGAAGAAAAAACAAATAAAGCTTAAATGATAGTTTTTTCTATATGGAAAAAAATAAATCAGTAATGAAGATCGTTCTATATTATACATGCTTTTCATGGAAACACGGTAGCCTGCATACTGTGATTTCTGTTCACTACTGTGTAAAAAAATATATATATAAAAAAAAAGAAAAAAGAAAAAAAAAAGAAATCCAGGTGTGCCTGAACCTCAAACTTAGTAATTTTTCACACAGTTTTCAAAGTTAGGAACAAGTTTGTAACATGAAGCAGATTAGAAAAATACAGTGACTCTGGAAGCAAAGGTTTAACAGGTTGTAGGAAACCTGATTTATTAGACAAGCATCTGGCATTGTTTGTTTTATCAGTATTAATTCTCATTCTTACGTTCATTAATTTTTAAGCTGTACAATTGGGAGAGATTTATATGATTTTTTTTTTTTTTTATGGCAAAACATTTCCTAAATCCGCTTCAGTATTTTATTATGTTTTTAAAATGTGAGAACTTCTGCACTACAGAATTCCCTTCTGCAGAAACCTCTAACAGTGCTTGGCTACCTTTGTAAATTCAACCTAGAAGGTAGCGGTTATAACATTAGATGTTGTAGTAGAGCATATTATCATTTAAAGTGTATTGTTAGCCTTAAGAAAGCAGATGATAGAAGAACTGAAGTTTCTTACTCATGTGGTTAAAAATGTAGTTGAAAAGATTGTTGTTGAGTTCTGATTGCAGGGACTAACAGTGTTAATACCGGTAAGGACAGCAAAGTCGTCAAAATCAGTGTTTGTAATTGTGTTTTGAGTATGTAGTAACAATATGAAGGATATGATATGAAGCTTTGTATCTCCTTTGGCCTTATGCAAGACCTGTGTGCTGTAAGTGCCATTTATCAGTATTACAAAGGCTCTCACCGGCCTTTCTCCAATGCGTGGCCTACAATAACTAGCATTTGTTGATTTGTATCAAACTTCTAATCTAATCATGGGGGAAAAAACACTCAGCCATCAGAGAAGTAAGAACACTGGTATCTTTCATTATTTAATTATTTGGTGGTATTTTTGGTTAATACCTGACTTGCAGAATTTCTCTACGATAATTACAAGGGAAATTTTCTAATCTGCTTTATTGCTTTATCAGTTTACTTTAATTTCAGACACATACATGACATGTTATCTGGCTCATAAGTATTTTCAAATGTTAGTTATTATGGACCCCATTTATTAACAATGTTAGCTGATTTTTACCTATCAGTATTATTTTATTTCTTTTAGTTTATAGATCTGTGCAACATTTTGTACTGTATGTCTCCAAACCTGGCAGTATTAATACCCTTCTTACTGACATATGTACCTTTTTAGTTTTAGAAAACTTTTATATTTATGTGTCTTATTTTTATATTTCTTTATTTATTACACAGTGTAGTGTATAATACTGTAGTTTGTATTAATACAATAATATATTTTAGTATGAAAATTTGGAAAGTTGATAAGATTTAAAGTAGAGATGCAATCGGTTCTCTTGCATTGAGATTTGATTTAACAGTGTTATGTTAACATTTATACTTGCCTTGGACTGTAGAACAGATGAATTAAAATGGGAATGTATTAATTTTACAATTGCAATCAATTCATTTTACCTTTACCCAGTTTTTAATATAAAGCTCTTAAATTTTGAAATTCACTGTGTGACTAATAGCATGATGCTCTGCAGTTTTATTAAGAGATTAGCCTAACCATAAAACTCTCATTTCCTTAGTAAGCCAAATTAGAGTAATCTTATAAACAGTGTTGGGAACAACGTTTAACTTTTTTGTGCCAATTTGTTCCTGTATTCATGTATGTATGTTACAAATCTGAAACTTCATTTTTAAGTTCCTTGTTACATCATGGTCATTTTCTAGTTTTTTACCAGACTCCCCATCTCACAATAAAATACGTCAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007260:ENSGALT00000011752:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.623 A=NA C2=0.797
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PU(38.5=16.4)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=8.0),PF134651=zf-H2C2_2=WD(100=13.8)
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:
GACGAAAGGCAGGACACTAGC
R:
AGCGATGATTCATGTGCTGAGA
Band lengths:
346-1986
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]