GgaINT0046953 @ galGal3
Intron Retention
Gene
ENSGALG00000011009 | F1NN72_CHICK
Description
NA
Coordinates
chr7:21323083-21325573:-
Coord C1 exon
chr7:21325217-21325573
Coord A exon
chr7:21323563-21325216
Coord C2 exon
chr7:21323083-21323562
Length
1654 bp
Sequences
Splice sites
5' ss Seq
GTGGTACGT
5' ss Score
8.61
3' ss Seq
ATATCCTTACTGTCTTTCAGGTA
3' ss Score
11.2
Exon sequences
Seq C1 exon
CTTCGAGTTTTCAAATTGGCAAAATCTTGGCCAACTTTAAATATGCTGATTAAGATTATTGGCAACTCAGTGGGGGCTTTGGGCAATTTGACCCTGGTGCTGGCCATCATTGTGTTCATTTTTGCTGTGGTTGGGATGCAGCTGTTTGGAAAAAGCTACAAGGAATGTGTCTGCAAGATCTCCAGCGACTGTGAACTTCCACGCTGGCACATGCATGACTTTTTCCACTCTTTCTTGATTGTATTCCGAGTGCTGTGTGGAGAATGGATAGAAACAATGTGGGACTGCATGGAGGTTGCAGGCCAAACTATGTGCCTTACTGTCTTCATGATGGTCATGGTGATTGGAAACCTAGTG
Seq A exon
GTACGTAATCAGTGGGAGTTTTTATAACTAGTAAGAATGTATTTCCTGCTTTTCATAGTTCAGAAATCAGAGATGAAGACTCTTTCAGAAATCATGTAATTCATTTGCCCTTCCTCTAAACCAGGTGCAAGTATACCTTGATAAGCTATGAAAAGTGGTTTGTTTTTTTTTTTTTTACTTCTTTCAAATCTTTAGTGGGTTTGTAATCTCTTCATTAAGATCATAGCTGAATTATTTTAATAAGGTATTTCCATTAAAATGCCTTTAAAAAAATCCAACTTAATCCACCATTGCAGCCAGTTAAACTGCCTAGTCTCAAATAGTTATGGGAAATAATTGGTCATGATAACATTTATATTACTGGAATGGCTTACTTTTTCCAATTTCAGTCTTGTTTCCCAATCAAAATAACATGGCTCTTCAATTTTTTCTCATAACTGATGACTTCTAAACTACTTATGCCTTTCACTGCTGGCCTTTTAATTACTCCCAAACTGCATTCTAGATAGAGATACAAGTATCGAATAATATGGGATAGTTATACTCCATGTCCTACACATAGCATTCCTCATTATATATCCCCAAATAACATAAGACATTTCAGTACCAGCATTGCTTTCCTGATGCACTCTATATGCCTATTTCTGCAGCACTTCTGCCTTGCTAGTTTTTAACCCTTCTGTATATACTTACATTTCATTTTTCCTACCCAACATTTCCACACTAGTATTTCATCATTAAATGTCATACTGGTTTTGAATAATTTCACCAGCTTGCCATGGTTATTCCTAATTGCAGTATTTTCTTTTTGAGCAGTAGCATCACTTCTCTCTTTGATACCATGCAAAGAATTTATAAATATGCCTCAAATTTTATAAATACGCTTTTTCACAGAGATACCAAAATACTGAGTTTAACCAAACTAACTTGAGACTCCTGTGGCATACCTTCTAAATATACAGCAAAATTGAACAGAAGTAATTGATAAATATTTTTAACTATCATTTTTAGTGAAGCTTTCACTTATGCTAACATAATTACATGTAGCCCAAATTCATCTACTGTATTTGTATTGTGTAATGACAGTATGAAAAAGCTTCCTAAAACCATTTCTGAAAACATCTAAGGATTCTTTACCTTGTAGCTAGTTTTCTGGCACAAAACAAAAAATGGTATGATACAGGTATTCGAGGCAAATATATGTTTTGTTGTATCCTGAATTAGACATACTGCAATTATGGTCTTCTGAACTGTAGAAGTCTGGAATCTGCCTGCATTCCCCTTGTCTGTAAACACTGCTGAAGAAATGACTTGCATCTCTTGCATACTACATCATGTTACATCCTTTTTCTTTATGGCGTTCTCCATTATAGGGAGCAGACCTGGAAGACTTCCAGTGTGGAGTAGAAAGGAGAAAGACAAGAGTTAAATTTTCACCTATATTGGTCAAGATATGTAATTTTAAAATATTTTTAACAAGTTATAAAAAAATACCAGAGATAAGAGTATGGACTTGAAATAATAGCAACAATATGGATTGGATAAAGTGCTTGTTATGATATAAATTTTATATCACATCGAACAACATTTAGTGAAATTATTTTGTGACTTACAAGTAAGAGATCCAAAATATTATATCCTTACTGTCTTTCAG
Seq C2 exon
GTACTCAACCTGTTTCTGGCCTTGCTCCTGAGCTCCTTTAGTTCAGACAACCTTGCAGCTACAGATGATGATAATGAAATGAACAACCTCCAGATTGCTGTGGCAAGGATTCAGAAAGGCATAGATTTTGTGAAGAGAAAAGTGCGTGAATTCATCCAAAAAGCCTTTGTTAGAAAGCAGAAAGTTTTAGATGAAATCAAACCTCTTGAAGACCTAAACAACAAAAAAGACAGCTGTATTTCCAATCACACGATAGTAGAAATAGGTAAAAACCTTGCCTATCTTAAAGAAGGGAATGGAACTACCAGTGGCATAGGCAGCAGCGTGGAAAAATATGTTGTTGATGAAAGTGATTACATGTCCTTCATAAACAACCCAAGTCTCACTGTGACAGTGCCAATTGCCGTTGGGGAATCTGATTTTGAAAATTTAAATACAGAGGAGTTTAGCAGCGAGTCAGACCTGGAAGAAAGCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011009:ENSGALT00000017933:16
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=0.100
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.2=5.0),PF065128=Na_trans_assoc=PU(61.3=85.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGATGCAGCTGTTTGGAAA
R:
TGCCTTTCTGAATCCTTGCCA
Band lengths:
347-2001
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]