GgaINT0034963 @ galGal3
Intron Retention
Gene
ENSGALG00000005752 | F1N8D7_CHICK
Description
NA
Coordinates
chr8:14382317-14384589:+
Coord C1 exon
chr8:14382317-14382493
Coord A exon
chr8:14382494-14384366
Coord C2 exon
chr8:14384367-14384589
Length
1873 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
TCTTTTCTTGCTTTTTGTAGCTT
3' ss Score
9.31
Exon sequences
Seq C1 exon
GTATTGGGATCCTGGTCCAAGAGCTGATCCTGTGGATGATTTCCGTTATATATGGGGAGGCTTTGCATATCTCCAAGATATGATTGAGCATGGGATTATAAAGACCCAGACCAACACTGATGTGGCACTAGGAATTTATCTTCAGCAAATGCCATATCCATGTTTTGTGGATGATGT
Seq A exon
GTGAGTAAGAGCACTTTATTGCTTCAATTCTGATGACTACTTGATGTGATGGACACTGTAAGATTCCCAAGCATCACCTCTAACTATAGTCCTAAGGCATATATGCAAGAACAATAACTGAGACATAACTGAATGTATTTGTTCTTTTCCATATCCCTCCATAACTCAGACTCCAAAAGCCACCTTTGCCAAGCTTCTACCCCTAAACCCAGTCCTGGACTTTGCATCCAGGCAACCAGTATTCAGACCAAAAATGAACAAAAACCGCTGCCCCCTTAACAGCAAGGATAAATAACTAGTCAATTTTGGGTTTTGTTTGCTTTGTTTTAAGGCTTACGTTTCCAGAAAATAGTAATAACATAACCCAAGTTTTCACACTGTTTACAGCTGAGAACTCACTGTCAGCATGATACCCAAGTAAAATGCTTTGGTACCTAAAAGAGCCAGTCCTGGGTCTATCCCTATGTATTAAACAGGATCCAAAAAAACATTATTTTTCTGAAAGTTTTTAACTAACTCTAAAAACTGAACAGCACCTGCAGCAAAACTAAATGCAAAGCACTGACCTGTGTCAGAACCATCACTGTCTCCTTCACTTACTCATATAGGATTCCCTCTATTATAGTAAGCCTATTTCCCTAATTATATCTCTAAAATCTACCTTTATACCGAAAGAACAATTTTCTAAAGAAAAACTGAACAAACAATACAAGTCTTGGTAGAACTTGTACCTGTCTTTCTATCTCTGTAAGTTCTGAAGAATACAGCAACCCAGTCTCATCAAGTGTATTATCAAACCCTAGGCCTAGACTTAAATTTAGATATAACAGTTCCCACAGCTACGGTTTTTTGGTGCTTAAAGACATCCAGCTCTCTACAGGTCTTACAGAATCTCAAGACAATTTAGGCTCTTAGAACTTTTTCTTACAGAATCCTAATCCCTGAATGTTTTTCCATTTATAACTACATAAAGAATATTTGCAATAAAGCTGGATGTGTGCTGTCAGTTTCTGCTAACATCAGCCATTTTCCTTCCCATGTATATGATACAATTTTTAGCAATTACCTGATCTTACCTAGCCTTCTTTTCCTTAATTCCACTCCATTGATTTTTGTGTAGAATTACTGCTTTTGTCTTAAATATCACATAAATCAAATTCCAGGAATTTCTTTTCCAGAAGGAGAAAGATATTTTTTACTCAGAGGGTGAGAAAATGAGCCTCTTGGGTGCAGACGGTCCTCAGAGGAGCTGTGGTTGCTATAACCTTCCCGTTAGCACTGCCTGAACATGTGCTCTAGATGATGTGGTGCATGCTTTTCTGATTAGAATGTGCCTGTTCCAATGTTGCTCTCTACTACTGCAGTCTTATTATAAATCTCCCTCAAAAAAGAAAAAAACAAAAAAAAACCCTGTTACAGAAATCATTTTACCATTCATTCAATGTGTTTCTTTGCAGGCAATTCTAGTAGTCTGCAGATTGCAGACAGGTTATTTGACTTATCATTACCTGCCGGCCTGACAGATAGTTGCCCTGGCAAGGCTGATGTTTACTTCCTCCCTTCTGAGTATATCGCAGTACAGAATCTTCATTTGTGCAAAAGCTCTCTGAAGCCTACAGCAGTCACAGGCATATCAGAGCTGATATGCAAACCCTGTATTGCTCTCTGTAGAGAGTTTGCTTAAGTGAAGCAAATGCATGCCTATGGTGAAAGTGCGTGTTGCACTATGCATAGCCTAGTTTTAGACTGAGAATTTCCAGTCCCGTGTTTAATAAAATGCATTCTTTCCTACTCTTTTCCTTTCTGTTCTTGCTTTTCATCTTAATATTTGTCTGTTAGATTTTATTCATCTCTCTTTTCTTGCTTTTTGTAG
Seq C2 exon
CTTTATGATAACCTTAAACCGCTCCTTTCCCATCTTCATGGTGCTTGCTTGGATATATTCCGTTTCCATGACTGTGAAGAGTATAGTTTTGGAGAAGGAAATGCGTCTAAAGGAGGCTATGAAGAACAGAGGCGTCACTAATGGAGTGATTTGGTGCACTTGGTTCCTAGACAGCTTCTTCATGATGGCTGTGAGCACATTCCTCCTCACAGCACTGATTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005752:ENSGALT00000009238:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(17.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(21.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGGTCCAAGAGCTGATCC
R:
GCTGTCTAGGAACCAAGTGCA
Band lengths:
343-2216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]