Sequence
atgc intronic sequence ATGC exonic sequence...caagtcttcttactttcattttactagaaaccaatcaacctgtgtagctgcatttatacttcaacactgtttaatggcaagaaactgatttttttggcagGTGGTATTTTGCGGGGTCCTTTTGGTTCTAATGGCAGTTGGGAACTTTGCAAACACAGTACAAACACTCATGGTCAAGTCTAGGTTCAAAGCAAAAATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G38960.1 (Glycine max), 3'ss of exon 9
-----------------caagtcttcttactttcattttactagaaaccaatcaacctgtgtagctgcatttatacttcaacactgtttaatggca-aga----------------aactgat-----ttttttggcagGTGGTATTTTGCGGGGTCCTTTTGGTTCTAATGGCAGTTGGGAACTTTGCAAACACAGTACAAACACTCATGGTCAAGTCTAGGTTCAAAGCAAAAATGA
| || | ||||| ||| | || || | | || ||| || | | || | | ||| | ||| ||| || |||| | || ||||||| |||||||||| ||||| ||||| ||||||| ||||||||||||||||| |||||||| || || |||| || || || || || ||||| ||||
gtactagttcgtttgtccttgttacttgactttattttgtacatcaattgattgattggaacagaagcaaataaa-tccaGTAATATTTTGTTGCATAGATTAGCCATAGCCTTATAATTGATAGAACTCTTCGGGCAGGTAATATTTTGCGGTGTCCTGTTGGTCTTAATGGCTGTTGGGAACTTTGCAAATACAGTACAGACTCTGATGGCAAAATCAAGATTTAAGGCAAAGATGA
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G44190.2 (Glycine max), 3'ss of exon 9
-----------------------------------caagtcttcttact--ttcattttactagaaaccaatcaa-cctgtgtagctgcatt-tatacttcaacactgtttaatggcaagaaactgatttttttggcagGTGGTATTTTGCGGGGTCCTTTTGGTTCTAATGGCAGTTGGGAACTTTGCAAACACAGTACAAACACTCATGGTCAAGTCTAGGTTCAAAGCAAAAATGA
|| | | | || ||| | |||| ||| || || || | || ||| | | | | | | || | | || ||||||| |||||||||| || || ||||| ||||||| ||||||||||||||||| |||||||| |
gtactagtttgtttatccttgctactttacttcactttgtacaccaattgattgattggaacagaagaaaataaatccagtaatattttgttgcatagattagCCTTAGCCTTTATAATGATAGAAGCTCTTCGGGCAGGTAATATTTTGCGGTGTTCTGTTGGTCTTAATGGCTGTTGGGAACTTTGCAAATACAGTACAGA------------------------------------
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G44190.3 (Glycine max), 3'ss of exon 8
-----------------------------------caagtcttcttact--ttcattttactagaaaccaatcaa-cctgtgtagctgcatt-tatacttcaacactgtttaatggcaagaaactgatttttttggcagGTGGTATTTTGCGGGGTCCTTTTGGTTCTAATGGCAGTTGGGAACTTTGCAAACACAGTACAAACACTCATGGTCAAGTCTAGGTTCAAAGCAAAAATGA
|| | | | || ||| | |||| ||| || || || | || ||| | | | | | | || | | || ||||||| |||||||||| || || ||||| ||||||| ||||||||||||||||| |||||||| || || |||| || || || || || ||||| ||||
gtactagtttgtttatccttgctactttacttcactttgtacaccaattgattgattggaacagaagaaaataaatccaGTAATATTTTGTTGCATAGATTAGCCTTAGCCTTTATAATGATAGAAGCTCTTCGGGCAGGTAATATTTTGCGGTGTTCTGTTGGTCTTAATGGCTGTTGGGAACTTTGCAAATACAGTACAGACTCTGATGGCAAAATCAAGATTTAAGGCAAAGATGA
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 9
-----------------caagtcttcttactttcattttactagaaaccaatcaacctgtgtagctgcatttatacttcaacactgtttaatggca-aga----------------aactgat-----ttttttggcagGTGGTATTTTGCGGGGTCCTTTTGGTTCTAATGGCAGTTGGGAACTTTGCAAACACAGTACAAACACTCATGGTCAAGTCTAGGTTCAAAGCAAAAATGA
| || | ||||| ||| | || || | | || ||| || | | || | | ||| | ||| ||| || |||| | || ||||||| |||||||||| ||||| ||||| ||||||| ||||||||||||||||| |||
gtactagttcgtttgtccttgttacttgactttattttgtacatcaattgattgattggaacagaagcaaataaa-tccagtaatattttgttgcatagattagCCATAGCCTTATAATTGATAGAACTCTTCGGGCAGGTAATATTTTGCGGTGTCCTGTTGGTCTTAATGGCTGTTGGGAACTTTGCAAATACA------------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agctgcatttatacttcaacactgtttaatggcaagaaactgatttttttggcagGTGGTATTTTGCGGGGTCCTTTTGGTTCTAATGGCAGTTGGGAACTTTGCAAACACAGTACAAACACTCATGGTCAAGTCTAGGTTCAAAGCAAAAATGA
aactgat putative branch site (score: 3)
ttttttt CT-rich tract
aaactgattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caagtcttcttactttcattttactagaaaccaatcaacctgtgtagctgcatttatacttcaacactgtttaatggcaagaaactgatttttttggcagGTGGTATTTTGCGGGGTCCTTTTGGTTCTAATGGCAGTTGGGAACTTTGCAAACACAGTACAAACACTCATGGTCAAGTCTAGGTTCAAAGCAAAAATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - ccaatca
- - - - - - - - - - - - - - - - - - - cctgtgt
- - - - - - - - - - - - - - - - - - - - - - - -ctgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaagaa