GgaINT0126302 @ galGal3
Intron Retention
Gene
ENSGALG00000000936 | F1NDZ5_CHICK
Description
NA
Coordinates
chr17:10871973-10875321:+
Coord C1 exon
chr17:10871973-10872205
Coord A exon
chr17:10872206-10875142
Coord C2 exon
chr17:10875143-10875321
Length
2937 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCCTATTGATTTTTCACCAGTTA
3' ss Score
6.12
Exon sequences
Seq C1 exon
GCTTTTTGCTGCCAAGTGCAGTGGCTGCATGGAAAAAATTGCCCCAACAGAATTTGTGATGAGAGCCCTGGAGTGTGTTTACCACTTAAGCTGCTTCTGTTGCTGTGTTTGTGAGCGACAGCTGAGAAAAGGGGATGAGTTTGTTCTTAAGGAAGGGCAGTTGCTCTGTAAAAGTGACTATGAGAAAGAGAAGGACCTGTTGAGCTCCGTCAGCCCAGACGATTCCGACTCAG
Seq A exon
GTGAGCGTTCCCACTTCTATCCCAGCTGGAAAAACTGGAAGAGTTTGCAGAGTGTTTTTACAGAAAAGCACATCCACTTTCTCTCTATGCATTTGTCACCCATACAGTTTCAGCTCTTAGCAGGCACAGCTAAAAATCTCAGCTACCAGTTCTTCCTGACTTTGTTCCTTTCCTTAATCTGCTGCTGTCTTAGTAAAGTTGAAAAAATGTTGGGGGCTCTTGAGGGTCAATACTGTGTGTTTCTATGAGATCACAGCACGTGAATCAGACTGACTTCAGTTTCCTGGGACCTCAATCAAAGCCTACTCTTTTCCACAGGCTTTCTTTCCTCCTGAAATATTTTTGCCCTGATATCAGGGAATCTTCTGCTCATATACTTTCAATAGCGAGCCAGAAAAATGGGTAGAAGGTCACCATGCTGTGCGTGCAGAGCTGCTCCTAAAGAAGGCCCTGGAGCTCTCCCAGCTGATAGCTGATGGGTGTCTTCCCCAAGATCGCCATGGTATGGGAGGGATAAACACTTGCTGTCCTCCTGCCACCTCCAAGGGAAAGTTTTGAAAGAGTGAGCAAAGCTGCTTGCTGTCTGGCTGGGGCTGAGAGCACAGTACTGCACACGATAAAAAGATCACACACTGAGTCTGGATTCTCCAGTCCAAAACCCAGAGCATCTGGCCACAGTTACTGTGAGGGCTGCCTATCAGGCTCAGGCATTAACAGGAGGAACAGCATTCCTCCTTTCTGTGCCATGTGCTCTCACCGAGACTGGAAACTTCTTTTTGTGTGTGTGCCCTGGTTGAGTCCAAGACTAGAGACAGTGTGTGTGCAGTACAATGCCAGTCATCATAATTGCTCATTTATTTCCCAAGAAAATGGCCAAGAAAATCAACAATTACCATTCCATTAAGCAGACAAATAACTTGGGTCTTTGCCTGTAGTTTATGGGAAAATAGACACAGTAATTGTCCTTACTGTAATTGTCTCTAATCCAAGAGCCATATTCACCACATTGCTCAAATTTATATTTTTGTGTCGGGAATGCAACAAGGCGAAGATCACTGCTGTGTCAGGAGGGTGTGCAGGACCAGACCTTTTCTTGTTATTTATTGCCTTGCTGTATTTGCAGGAGCATGAATGCTTAGCTCTGTAATCCCGATATCACAGGGTTTGGGGTCTTTGTGAATTTGCATGAGGTGCCAGAGTTTCCTACTTGCCCTTCAGCATGTTGTTCTGCCACCCCAGCTTCAGCAACCTGCTGCAGTCTGTACCCAGACAAACCCCTTTGAAAAGAGCAGTACGGAGCTGTGCCCAGCCCTGCAGGCTGAGTATGGTGATCCTGCTCCTTCCACCAGCGAGTGTGAGCTTGCCATGCCAGGACAGGAGGTTGCTTGTTGCCAGCTGCCTGCCTCGGAGGGCCATGTCTGGCATGAATGCACGTTCCTTCACTCCTGGCTTTTGTACTTTGCGATCAACTGGGCAGTAAGCTGCCAAAGCGGTACAAAACGAACTTGCTTTCAATTTCATTTTCCACTGGCACAAGGGATAGTTTCTTACTCCTGGAGGTGCTTTTCAGCTTTTTTTCCATTATTCTCTGTTAGCCAGACATGAACCTGAAAAACAAGTTGACAAATTAAATGAGATGTTTTGTCTCCCATTCTCAAATGCATTGAAAACACATATCTCCTAAGTGCCTGTGTGAGAGCAAATGATCTCCCATACCCCTGGCTGAGTGTGTGTCCTTCTCTAATCAAATATTTATCCACTGGACACAAAAGTAGCTCTCCAATGAGCAATACTAATCTTCACTAACCTTTCCTTAGAAATGGCTTGCTGGAAAGTTAATAATGTCATGGTTATTAAAATGACTGAACTTCTCTTTAATCATTAAGCAAAAGATGCTTATTAAAGTAAAAGGTGATTAGATTGCTAGGTGCATAATAATCAGACCCAATAATGAATTAAAGTCTAATTTGTTAATTCCCCAAATGTAATTTCTGAGTATATCAAAATTGCAGTGCGTTTCTTAAGGTTGAGGTTCCTAGAATAGTACATTAATGTTTTCTGGTAGAAAAAAAAACCTGGTAGTCTGTTGAAATGAAATATACTGAGTTGAAAAGTTGTTTTTCACATCAGAATTCAGACTTACTCTTTAATGTTTGCCACTGAGAATGCAATTTCACAGTACAATATGCGAGCATACATAATATCACCAGACTGTAAGAATGTTCATAGTGTAACAATAGAAATACAAATAATCTATTTACATAAGCACATATATACTTGTGTTTTTGCCAAGAGAGATAAATTTGTGCATACACATATTGATAGTTTGTATTGAACAGAGAAAGAATACTGAAATGTCAGGGAAAATACTTTATTTGATATTATCTTCAGAGCATCAAAATATTCAGAACAATTTCTGAAATCTACACTGTATTTATCTAAACAGACTAAGATATTTTTGAAATATTTGCACTTACACTGTTTTACCTTGGGGACAGTGGCACCTCTCTGAAACTAATGCAGAGGGAGAAGATGCAGCTATTCTGTGAAGGCAAAGGTGTGTGTTAGTCAGTGTGGTTGCAGCGGTGTCAGCAGGTGAGCACAGAGGGAATCAGATGATGGTAGAAGGGTACCACGACTCTCTGTGCCCAGTTTCTGGAGATACTGCATTGTATTCTGAATTTACATCCCCTGATCTGACCCATGCCCTGAATTATATATCAAGCAGAAAAAAAATATTCTTCTCCTTTTGTGGAATTTGATTTAGGCCATATGCACAGATTTAAGATAGTCTCCTCCTGCCCATAGTAAATGTACGTCTGCAGGTAAACACAGTAGTTGACCTGTTGATGAGTTCACAGCTGAAGAGCAGTTCTCAAACACCCCGTTGTCTTGGTGGAACACAAACAGTTTTATATCCTATTGATTTTTCACCAG
Seq C2 exon
TTAAAAGCGATGATGAAGATGGAGATGTTAAGCCCACCAAAGGACAAGTAACACAAGGAAAAGGAAGTGATGATGGGAAGGACCCAAGGAGACCTAAACGACCAAGGACAATACTCACTACGCAGCAGAGACGAGCATTCAAAGCATCCTTTGAAGTGTCTTCCAAGCCCTGTAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000936:ENSGALT00000001376:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.750
Domain overlap (PFAM):
C1:
PF0041217=LIM=PD(3.6=2.5),PF0041217=LIM=WD(100=74.7)
A:
NA
C2:
PF0004624=Homeobox=PU(47.4=45.0)
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]