Sequence
atgc intronic sequence ATGC exonic sequencegttatcactgattatgagttttttttgttaatagtttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctcttttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------------gttatcactgattatgagttttttttgttaatagtttgacttgccagtaatatcatgatctttttgt-tgtattatcatctttaaatcaagtagcttc--tcttttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
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gtaagcacaccatatatgctaatttttaagtttgcactaagatattgttcttgaatttgtgcattatt-tcattttctcttgatattagcac-atttataactgatatgatattctcactgtctgtttctaaaataatatatatttgtgcttcattgccttttagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACAGGTGGATATGGAAAAAGCATTAGCCATGTAATCATAGGTCTGAAGACTGTAAAAGGGACTA-------
upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g62040.1 (Oryza sativa), 3'ss of exon 3
-------------------------------gttat-cactgattatgagttt--tttttgttaatagtttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctc----ttttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
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gtaagcacatagttttagctagttttttaagtttgtgcaaggatagtgttcttgaattacgttttcacactcattcataactgatacggtattcccattgtc-tgtttctaaaataatataaaactgtgcttcattgccttttagGTTACTGAACTTTCGCCAGAAGAAGCTGAGAGTACAACAAGTGGATATGGAAAAAGCATTAGCCATGTAATCATAGGTCTGAAGACTGTAAAAGGGACTA-------
upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 3
gttatcactgattatgagttttttttgttaatagtttgact-tgccagtaatatc--atgatctttttgttgtattatcatctttaaatcaagtagcttctct-tttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
| || || | ||| ||| | || |||| | | | | | || | ||| || || | | ||| || || | ||| | | |||| || ||||| | ||||| ||||||||||| ||||||||||||| ||||| |||| |||||||||||||| || || ||||| ||||| ||||| || || || |
------agtggtttta---tttatttatcaactgtttcattatcgctttggtagctaatgttcacttcttgcttctataatagatataccaat--gttgctctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA-------
upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------gttatcactgattatgagt-tttttttgttaatag---tttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctct---tttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
|||||| || || | | | | |||| || | || |||| | ||| || | || |||| | || ||||| | || | || || ||||| || ||||| ||||||||||| ||||||| ||||| ||||| |||| |||||||||||||||||| || || | ||||| ||||| || || || |
gtaagcaatggatatatgcccatgtccaagttaaacgaatactaggctataattgcattagtgatttcctttatttatcaatggttttcattatcgctttgatagctgatgttccacttcgtgcttctataataaatttaccattgt-tagtctataataaatttaccagtgttgctctgttcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCAAAAAGCATTAGCCATGTAATCATCAGCTTAAAGACTGTTAAAGGGACTA-------
upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 3
gttatcactgattatgagttttttttgttaatagtttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctctt-ttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
||||||| | | || | ||| | | || | || | || | |||| | | | | | ||| |||| ||| |||| || || ||||| |||||||||||||||||| ||||||||||||||| ||||| ||||||||||| || |||||||| || || ||||| ||||| |
-------------gtgagtttgta--gctattctcttgtcaaaactcggatgtgattgtgccttgttcatattgttgtttatgtttt-----gctggtcttgtttaagGTCACCGAGCTCTCTCCAGAAGAAACTGAGAGCGTAACAGGTGGTTATGGTAAAAGTATTAGCCATGTCATCATTGGATTGAAGACAGTGAAAGGAACAA-------
upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 3
gttatcactgattatgagttttttttgttaatagtttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctctt-ttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
||||||| | | || | ||| | | || | || | || |||| | | | | | ||| |||| ||| |||| || || ||||| || |||||||||||||| |||||||||||||| ||||| |||||||||||||| ||||| || ||||| ||||| |||||||
-------------gtgagtttgt---gctattctcttgtcaaaactcggatgtgattgtgccttgtacatattgtagtttatgtttt-----gctggtcttgtttaagGTCACCGAGCTCTCTCCGGAAGAAACTGAGAGTGTTACAGGTGGTTATGGTAAAAGTATTAGCCATGTGATCATTGGTTTGAAAACAGTGAAAGGAACCA-------
upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S4_73V6.1 (Physcomitrella patens), 3'ss of exon 4
gttatcactgattatgagttttttttgttaatagtttgacttgccagtaatatcatgatctt--tttgttgtattatcatctttaaatcaagtagcttctcttttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
| | || | || | |||| | | | ||||| | | ||| || || ||| || || | | | ||| | | || | | | |||||||||| |||||||| |||||||| || ||||| ||||| || ||||| || ||||||||||| || | || || | || |||||||| |||||||
--tcaaggtcatggtccgtctctttt-taagcaatttgatt-----gcaatctcctggatacaatttattcattttttgtgtgtaatttatgtc-tgaaacctatgcagGTGACAGAGCTCTCCCCTGAAGAAACAGAAAGCACTACAGGAGGGTATGGTAAGAGCATTAGCCACGTTGTAATAGGGCTGAAGACTGTGAAAGGAACCA------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttttgttgtattatcatctttaaatcaagtagcttctcttttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
tagcttctctttttt CT-rich tract
tattatcatctttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatcactgattatgagttttttttgttaatagtttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctcttttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT