GgaINT0101916 @ galGal3
Intron Retention
Gene
ENSGALG00000016207 | ZFAT
Description
NA
Coordinates
chr2:148275660-148278615:-
Coord C1 exon
chr2:148277150-148278615
Coord A exon
chr2:148275893-148277149
Coord C2 exon
chr2:148275660-148275892
Length
1257 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
ATGTCTGATTTTATTTTCAGGCA
3' ss Score
9.1
Exon sequences
Seq C1 exon
GTTGGGTCCAACTCAGCTGAAAATCTTTACTTGTGAATACTGCAACAAGGTGTTCAAATTTAAACACTCCCTCCAAGCACATTTGAGGATTCACACAAATGAAAAACCATACAAGTGTTCATACTGCAATTATGCCAGTGCAATCAAAGCCAACCTTAATGTTCACATGCGGAAACATACAGGAGAGAAATTTAGCTGTGACTATTGTACGTTCACATGTCTCAGCAAAGGCCATCTAAAAGTCCATATTGAAAGAGTTCACAAGAAAATTAAACAACATTGTCGCTTCTGCAAAAAGAAATACTCAGATGTTAAAAATTTGATCAAGCATATCAAGGAAACACATGACCTTCAAGATAAGAAGGTGAAAGATGTTTTTGACGAGCTTCGCTTGATGACACGAGAGGGCAAAAGACAGCTTCTTTATGACTGCCATATTTGTGAACGCAAATTTAAAAATGAACTCGATCGAGACCGTCACATGCTTGTCCATGGTGATGAAAGGCCCTTTGCTTGTGAGCTCTGTGGTCATGGAGCCACTAAATACCAAGCTCTTGAGCTTCATGTTCGCAAACACCCCTTTGTCTATGTGTGTTCTGTGTGCCTGATGAAATTTGTCAGTTCTGTAAGACTCCGTGCTCACATCAAAGAAGTACATGCAGATCTGCAGGAAACTTCTGTTTTTAACAGTTCCATCAACCAAAGTTTCTGCCTGCTTGAGCCAGGAGGTGATATACAGCCGGAAGCACTTGGTGAACAGCTATCGCAAACTGCAGATGAATTGACTATCATGAGTACTAATCCTGTTAACACACCATCTACTTGCGCAGATGAATCAATAGCTGCAGATGTGAACCATAATGATCAGCATAATGGTGACTTAAAAACTAATACCATTCCTTCCTTGGAATGTGAAAATCCTCTGGTAGAGAATGCAAGAGAGACTGTCTGTGAGGCATCAACAGACACAGCAGTCACAAACATTCAATCCTGTGTAATGTCAGATTGCTTTCTACTGAAAAATGGCACCTCTGCTCCTGATGAGTTAAAAGATTCTGCTGCAAATGGAGAGGAATCTAGTCATTGCAGTTCTGTAAATGAACAGGGTGAAGAAACTCAGCTTTTGCTCACTGAGGATGCAAGTTTAAATGTGAGTCAAAACAATGCAGTGACTGAGGATCTTTCAGGTTCTGAAGAGAAAAATCAGTCTGTTGCTTCTAGTGAGTCAGAAACAAGCAATCCGTCAGTTCTGAACTCAACAGGAACAACTGACCCTTTGCTAGCACCAGATGCTAATGCAGCCGTCAGTCCACAGGCAGCTTCTTCTAATGCAGATAAATCAGATAATCGGAGTGGAGCTGTTGCCTTTATGCAGATCTTGGATAGCTTACAGAAGAGACAAATGAACACAGAGTTGTGTGAGAGGATAAGGAAGGTTTATGGAGATTTGGAGTGTGAATATTGTG
Seq A exon
GTAAGAAGCAGTATGAAGATGTGGGGGGGTTTGTTTCCTTTTCTCTTTTTTTTTTTTTTAATGTTATATGATGGGCCATCTGCTTCCTACTTCTCTAGTGTATAGTTTTTGGTAAATTTGTGTATCTTTACATCAGTACTTATTTTTTAGTTCAGTATAGACTGTGGAGTTTAGGGTAGTTTACCCTCAGCTGTATAAACAAAATGAAATGATTCAAATCTCCTCATAAAACAGTCATGGAATGCAGTAAAACAGAGCTCTGTCCTGGTCAGTTTTCTGATGATTTGAAGTTTGATAGAACTGGACAGATTCTTTTTGCCTGTCTGCCTTATCCTACCTCAGAAGTTTTACTGGGGCCAAGCAGAACAGACATAGGTGTCTGTGATGATCATTAGCCAGTCTGTGCTTTAGGACTGAAGCTTCATTATTGTCTTAGTGTAAAGTTCAGTCTTCATTGCAAAGTGTGGGAAGATGTACAATCATACAAATTATGTACAATAAGTACATAATTAAATAATTAATCGTTGTTGTTTAATAAATAATTAAATAAACAGTGCTGATATATTTTTTTAAACCATTTCTCTGACAGTGAAAATTTTCATTATGTGCTTTAAGATCAGCACTGTACTGATTTTAATTGATTTTTGTATTTATTGAAGTGAGAAGACTATGCATCCCCATTTATCCTAACTGCAAATTGTTTAGCTGACACAGCTGGAATGAAATAATTGGGATTTTTCTTATAGTCTCTCTTTTTGAGAAGGGAAAGGAGTAAAAGTTTTTGTTTTTTAAATTGTCACTCTTAAACACTGTAACATGTTTTATCTGTATGCATTTTTCTTTTTTTGGTGCCATTGTGTCAAAAGAACTTTTAGGAAGGAATAACATGAAAGGAAGTACCAAAAAGGATTTCTGATAATCTCTTTTACTGAACAGCTGAATTCAGAGTCTTTGTATAGGAGAAGAGATGTAAAGGGCTTACTCATTAGCAAAAAGATCATTTATAGGTAATGAAGTTGCACTTGTTAAGCTATTTCAGGACATATGACACAACCTTTTTAGACAAAAGTGTTTAGGTAAACATTTTTGTTAATAGACTCTTAAGACTCTTAATAGATAAGGGTTTTTGGTTGTTGCAGCCAGAAGGGACACAATTCAAACGGCATGCTTTGTCGTAAAAGAAAATTGGGCATGCATTGGAATTTTCATTAACAATTGCTTAGAAATCACTTTCTCCATGTCTGATTTTATTTTCAG
Seq C2 exon
GCAAGTTATTTTGGTACCAAGTGCATTATGACATGCATGTTCGAACGCACACTCGAGAACATTTGTATTATTGCTCCCAGTGCAGTTACTCTTCCATCACCAAAAACTGCCTTAAGCGTCACGTCATTCAGAAACACAGCAATATTTTGCTGAAATGTCCTACAGAACATTGTGACTACTCTACTCCAGATAAATACAAGCTCCAGGCACATCTTAAAGTTCACTCTGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016207:ENSGALT00000026126:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.335 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=5.1),PF134651=zf-H2C2_2=WD(100=5.1),PF127562=zf-C2H2_2=WD(100=16.1),PF138941=zf-C2H2_4=WD(100=4.9)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=33.3),PF134651=zf-H2C2_2=PU(39.3=14.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAATCCGTCAGTTCTGAACTCA
R:
ATGACGTGACGCTTAAGGCAG
Band lengths:
358-1615
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]