GgaINT0056419 @ galGal3
Intron Retention
Gene
ENSGALG00000000351 | Q71LH8_CHICK
Description
NA
Coordinates
chr5:19808366-19811908:-
Coord C1 exon
chr5:19811693-19811908
Coord A exon
chr5:19809145-19811692
Coord C2 exon
chr5:19808366-19809144
Length
2548 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
CTCTGCTGTTGTTGTTTTAGGCT
3' ss Score
10.79
Exon sequences
Seq C1 exon
GGAGCCGGTGGATGAGGTGCTGCAGATCCCCCCCTCGCTGCTGACATGCGGGGGCTGCCAGCAGAACATCGGGGACCGCTATTTCCTGAAGGCCATCGACCAGTACTGGCACGAGGACTGCCTCAGCTGCGACCTGTGCGGCTGCCGGCTGGGAGAGGTGGGGCGGCGGCTGTACTACAAGCTGGGCAGGAAGCTCTGCCGGAGGGACTATCTCAG
Seq A exon
GTATGCGGCCTCCCAGCCAGCTTCTCATAGAATCATGGAATCGTGTGAGTTGGAAGGGACCTTAAATGCCATCTGGTCCACCTCCCCTGCAATGAACAGGGACGTCTACGCTAGATCAGGTGCTCACAGCCCCATCCAGCCTGACCTTGGGTGTCTCCAGGGATGCGGCATCCACTGCCTCTCCGGGCAACTTATTCCACTCACCTCCCCTTCTTTCTACCATTTCAGCTTTGTCTATCAATTTGAGGTACAGCTAGTGAACAAAGAATCATGCATAATTCATTTTGGCTAATCTTAGATGTAGAGTTTAAGAGTAATGGGGTTTGCTCAGTGCTGCTGCTCCCCAGATAGCTGGATGCTGACTGAGCCATGTCAGCGTGGGGTTCTGCCAAGCAGAAATTGGGCAGCAGTGATGAATTTCAGGAGGACCTCCCTGCCCAAGCTGACCGCAAGCCAGCTCCCCAGAATGGCTTTAAGCAGTTCTCTGCCACTCCAGGCATTGCTGTGGGGCTGAAAGTTATATAAAAACAGGTGCTGAGATTGGCTACTGATGAAAGATCATTTCGTTCTCTCATTTAAGAACACGGTATCCAAGGTAACTGAATTTAATTCATTTTCCTGATGTGGTAATGTCAGCCCTGTAAGAGACGGTTGATTCCTCCAAGCAGTGGGGCCGCTGTACTTGTTTGGTTCTGAAGTGAGAGCCTTTTGTACGTGGATCGATCCATGTCTTTTTCTGCATCACTGGTAACTTACTGGGAGCACTTCAAGCAGAAGGACATCATGTGCTGGATGTGCAGTGCGCAGCTGCAGCCGGTGCAGGGAACTTTGGTCCTGTTAAGTTGGACCCCACGGAGTTTTCAGCAACATCTATCTGCCTATCTGATTTGCCATAATTGTTAAGTAAGAGTTAGACTGGGAATAATAGATTTCACAAAACATCCTTAATGAAGGATCTCTGTGTTCTCAGTTACAAGAGAAGTGTTTCGATCTTAGCTGCGCTGGCTGTATCCCATTTGTCCCAATGGATCCCTGATGTTGCAGGAAGTTTGTGGAACAGGCTGAAGACACTGCATATATTTTCAGCTACCTTACTGAAGTCTGCAAAAATTAAAGCAACATCTCAGAGGAGCTCCTATGGATTATGTTCCAGAACTTACCAATGGGAATTTGTCTGGGCAGAAATGGGACCACTTGTAAACACTCAGCAGACATCATGTTCCAGCAATGAACCAGTGTTAGCTACACTTCCCAGATACTTTTTGTCTTAAAAGGGAAGCAAGAGAAAATATGTCAGTGCAGCAATGTATTTTCTTGCCATGAGATGGAATGTTTTTGTTTATTTAATAATATAACAGGATATCTTCCATCATTAATGAGACATCTTGCAACATTTGTGTAACCTTATTACTTTAGTTGGGCAGAAGTAGACACTGACATCTCCTGGTAGACTAAAGAAATGATGTCTTCTACCCTGAAAGAGCCCTGCAATAGGTATTCCATTTCCAGTTCAGGATATATGAAGCAGGCACAGAAGTGAAGCATAAGGGGTGGACAAAATCTTTCTGAAATTAGTATGGATGCATAGAATTCAAAGTCAGTGGGTGTATTCTTTACACAAGTAATCGGATTTCTCCCTCCTTCTAAGAATATACATGATAATCGTAGCGGTCTTCTCCAACCTAAGTGATTCTATGATTTTATATATATACATGCTCTGTATATGTCCCTTATTTATTAATGATATGACTTCCAAACTCTGTAACCAGCAGGCTGTGTGAAATGCTGCTGTTCATTTTGTCATCACACATGGCTGAGTATGTTGCTTTGCTTCAGCTGAGAATGCTGGCACATGCTGTGAGGGGGACACACACGTGGTGCATTTGCTAGGGGCTCCTTTTAATAGAAAATACCATACCGATCTCAGCAGGGAATCTCAATCTGCTTTCAAAAAGAGCAGTCCAGCACATAGAATTTTCTGGGGCACCAGAGTACCTGGAAGGTCTTAGCCTGTATCCTGAAACCCAGCAGGAGTGATTTCATGAATGCAGAAATATTTGAGTTTGAAAGAATCTCAAATGTGAAAGCAATGAATGCAGACAGTAGAACATTAAATCGTAGCTATGTCATAATGTGGCAACTTTCTCCTGTGAGCCACAATAGCAACAGCTGAAGATAGGCAAGATTTATCAACTGAAAGGTAATTACTGTTGATGGTATAAGAGGAAGTATTAGCATCACACAACTTTATGCTATGATCTGGTGAACCTTCACTCTGCTTGAAGCTGCTCAATGTTTCAGGATAACGTAATTGATCACAGAAGTCAATTACCTTAGAAATAAGTGAAGACCTTGGATTTTCTGCCCCGGTTTTTGTATTTTAAAGGTCTGAGTTCTGCTCAGCAGCTTTCCGTGTGACCTCTATGTATCTTGGCAATAGTAGGACTAATGAGGCAATGCACTGATGTTGTGTTCCTGTTTTGACGATTTTTTTCCCCACCTCTCCAGCAAAGGAACTGTAATTACTTCTCTGCTGTTGTTGTTTTAG
Seq C2 exon
GCTCTTTGGCCAAGACGGCCTCTGTGCCTCCTGTGACAAACGGATCCGGGCTTATGAGATGACCATGCGGGTGAAGGACAAAGTGTATCACCTCGAATGCTTCAAATGCGCGGCCTGCCAGAAACACTTCTGTGTTGGGGACAGATACCTCCTGATCAACTCGGACATAGTATGTGAACAGGACATCTATGAGTGGACTAAGATAAATGGAATGATATAGCAAAGAGGTGGCTCATGATCTATAAAAAGACATCTCACGGGTGACGCAGACACGTAGCTGCAATGAGGAGATAACCACCTGAGCTATGTGCTTTGTCTAAAATGGGGGGGAAATACCACAGAGTAAGCCCTTTTCAGGCAGTGCTACGTAGAATCTAAACTACATATAAATGAAGAAGGGAGACTGAAGCAATAGTAGATAGACTGACTTCGGCTAACAAAGGCGTATCGACAATAACTGACATCAGCCAGATAGGCAAGAGCTGGGGAGCAAACACGATGTGATAACGAATGCTCATAACTGGGAAAACAGTAGTGACTTATGTAAAGAGATGTTATGACTTTGTCACCTGCAGACTAGGATTGTGCAATTGACTTTTCTTTTCAACTTGTTTTAGTTACTCAGTCTAGACAACTGCTCCTAATGTAGACATGAAGAGGAATACTGGTAAAAAAAAAGGGCCAGCCCCTTACGTGGTCATTTGATAAGGCCTTACGTTTTGGGTTAGGAGAGAAAGGGGGAAGAGGGTGGGGGTTATTTTTTGCATGGATTCTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000351:ENSGALT00000000471:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0041217=LIM=PU(94.9=77.8),PF103674=Vps39_2=PU(14.0=8.3)
A:
NA
C2:
PF0041217=LIM=PD(3.4=2.7),PF103674=Vps39_2=PD(83.7=48.6),PF0041217=LIM=WD(100=79.7),PF079757=C1_4=WD(100=56.8)
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:
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]