Sequence
atgc intronic sequence ATGC exonic sequence...aatgtagatatgcatttagatcttattctcatgcacatcttgtggccaccaaattctctctatcctcatactttataactaaattttgcacttgtgtcagGATGGTGACCCTCGTTTATCAAGTTTTGGCCTTATGAAAAATAGTCGAGATGGTAAAAGCTACAGTACAAACTTGGCTTATACTCCACCAGAGTTTTTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G169080_T01 (Zea mays), 3'ss of exon 4
-aatgtagatatgcatttagatcttattctcatgcacatc-ttgtggccaccaaattctctctatcctcatactttataactaaattttgcacttgtgtcagGATGGTGACCCTCGTTTATCAAGTTTTGGCCTTATGAAAAATAGTCGAGATGGTAAAAGCTACAGTACAAACTTGGCTTATACTCCACCAGAGTTTTTGC
||||| | || | | | || || || | | || | | | | || | || || |||| | || | | | |||||| ||||| || || | ||||||||||| | ||||| || || || ||||| |||||||| ||||| ||| ||||||| ||||||||||||||| | |
atctgtagttgcctatgtggttttttacctgttgtaattgattattgtagctgcctaaggaata-catcgcctgttgtaaccgatttctattccc-tatcagGAAGGTGATCCCCGCCTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGATGGAAAAAGCTATAGTACTAACCTGGCTTACACTCCACCAGAGTTTCTAC
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G16420.1 (Glycine max), 3'ss of exon 4
aatgtagatatgcatttagatcttattctcatgcacatcttgtggccaccaaattctctctatcct------catactttataactaaattttgcacttgtgtcagGATGGTGACCCTCGTTTATCAAGTTTTGGCCTTATGAAAAATAGTCGAGATGGTAAAAGCTACAGTACAAACTTGGCTTATACTCCACCAGAGTTTTTGC
|| | | | | | | | |||| ||||| | | || | | |||| | | ||| | ||||| || | || || |||||||||||||| || || ||||| |||||||| ||||||||||||||||||||||| |||||||||||||| || || |||||||||||||| || |||||||
----tacgcgaggaat--gtcataaatgccatgaacatcattggttcattagtacatgtctaaattatggattgaaatttgttactaatttattcatttctgtcagGATGGTGATCCCCGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G06140.1 (Glycine max), 3'ss of exon 4
aatgtagatatgcatttagatcttattctcatgcacatcttgtggccaccaaattctctctatcct------catactttataactaaattttgcacttgtgtcagGATGGTGACCCTCGTTTATCAAGTTTTGGCCTTATGAAAAATAGTCGAGATGGTAAAAGCTACAGTACAAACTTGGCTTATACTCCACCAGAGTTTTTGC
| | | | | || | |||| ||||| | | || | | |||| | | ||| | ||||| || | || || |||||||||||||| || || ||||| |||||||| ||||||||||||||||||||||| |||||||||||||| || || |||||||||||||| || |||||||
------ctcacgaagaatgttaataatgccatgaacatcattttttcattagtacatgtctaaattatggattgaaatttgttactaatttattcatttctgtcagGATGGTGATCCACGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaccaaattctctctatcctcatactttataactaaattttgcacttgtgtcagGATGGTGACCCTCGTTTATCAAGTTTTGGCCTTATGAAAAATAGTCGAGATGGTAAAAGCTACAGTACAAACTTGGCTTATACTCCACCAGAGTTTTTGC
aactaaa putative branch site (score: 2)
tcatactttataacta TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgtagatatgcatttagatcttattctcatgcacatcttgtggccaccaaattctctctatcctcatactttataactaaattttgcacttgtgtcagGATGGTGACCCTCGTTTATCAAGTTTTGGCCTTATGAAAAATAGTCGAGATGGTAAAAGCTACAGTACAAACTTGGCTTATACTCCACCAGAGTTTTTGC
- - - - tatgcat
- - - - - - - - - - - - - -ctcatgc
- - - - - - - - - - - - - - - - - - - cttgtgg
- - - - - - - - - - - - - - - - - - - - - - -ccaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgca