Sequence
atgc intronic sequence ATGC exonic sequence...aagttttccttttaaaaaatgcccaaaaagattggcagttatccatgttgtaattgagactactatgttctagctgcttagatatccattgtatttgtagGGAATTCTTCAACCTGACATGTGGGGTGTAACTCCTTCAAGTCGGTGGGATTGGGATGCTCTTAGGAAAATGATATCAGAAAATGGAATAAGAAATTCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 12
---------------------------aagttt--tccttttaaaaaatgcccaaaaagattggcagttatccatgttgtaat-tgagactactatgttctagctgcttagatatccattgta-----tttgtagGGAATTCTTCAACCTGACATGTGGGGTGTAACTCCTTCAAGTCGGTGGGATTGGGATGCTCTTAGGAAAATGATATCAGAAAATGGAATAAGAAATTCAC
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gttctcctttctccttttcaattacttatgcttagtgtcttgtgatatttatgttcatgatgaagatttatgtttgttttattctcaaatttctatgcattgacagccaaagcttgctctgtacctgctttgtagGGCATTCTTCAACCTGACATGTGGAATGTAGTGCCATCTACCAGGTGGAATTGGCCATCTCTAAGGGAGACCATTTCTAAAGCTGGGATAAGAAATTCTC
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G39500.1 (Glycine max), 3'ss of exon 12
---------------------------------------------------------------------------------------aagttttccttttaaaaaatgcccaaaaagattggcagttatccatgttgtaattgagactactatgttctagctgcttagatatccattgtatttgt-agGGAATTCTTCAACCTGACATGTGGGGTGTAACTCCTTCAAGTCGGTGGGATTGGGATGCTCTTAGGAAAATGATATCAGAAAATGGAATAAGAAATTCAC
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gtatataaacttaagtgtctttcactgccctcggattgaattcctgagcacaagtataattatacagcatatattttatctaatgtagtgtggaactcgtatgcacatgcaacttaaatttcaaggtctatagttagtatacatgaagataat-ttctacttgcttaggtgttttttgtatttctcagGGAATTCTTCAGCCAGACATGTGGGGTGTGACTCCCTCTAATCGTTGGGATTGGGATGCACTTCGGGAGATGATATCAAGTAATGGTGCAAGAAATTCAC
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 12
------------------------------------------------aagttttccttttaa-------aaaatgcccaaaaagattgg---cagttatccatg-ttgtaattgaga----------ctactatgttc-----tagctgcttagatatccattgtatt-tgtagGGAATTCTTCAACCTGACATGTGGGGTGTAACTCCTTCAAGTCGGTGGGATTGGGATGCTCTTAGGAAAATGATATCAGAAAATGGAATAAGAAATTCAC
|| | | | ||| |||||| || | ||| | || | | | || | ||| | | || ||||| ||| |||||| | ||||||| || ||||||||||||| || |||||||||||||| | || |||||||| |||||||||||||| ||| || | |||||| || | | || | || || ||||
gtacattcctgttaaatgtttttatacttgtgtctttttaagtgtcctgagctatattcataatgcactggaaatgctcatgtatattcaacttaattttttaggcttatgattagaaatgtaaacatccacgatgtttgtatgtagtggcttaggtgatttttgtattgtgcagGGAATTCTTCAGCCAGACATGTGGGGTGTGATGCCCTCAAGTCGTTGGGATTGGGATGCACTTCGGGAGATGATAGCAAAGACGGGTGTGAGGAACTCAC
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 12
--------------------------------------------aagttttccttttaaaaaatgccca---aaaagattggcagttatccatgt-tgtaattgagactactatg----ttctagctgcttagata--tccattgtatt-tgtagGGAATTCTTCAACCTGACATGTGGGGTGTAACTCCTTCAAGTCGGTGGGATTGGGATGCTCTTAGGAAAATGATATCAGAAAATGGAATAAGAAATTCAC
|||| || | | | | | | | | ||| | | || || | | | | | | || || ||||||| | | ||||||| ||||||||||||| || |||||||||||||| | || |||| ||| |||||||||||||| ||| || | ||||||||| | ||||| | ||||| ||||
gtatataatggttttcaatgccctccgattgaagtcctgagtgaaagtatttatacagcatagtttttatctgatgtaatagcattcgtatgcacatgcaacttatgcatccaagatatttttacttgcttaggtgatttttttgtattgctcagGGAATTCTTCAGCCGGACATGTGGGGTGTGGCACCCTCAAATCGTTGGGATTGGGATGCACTTCGGGAGATGATATCAAAGAATGGTGTGAGAAACTCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgtaattgagactactatgttctagctgcttagatatccattgtatttgtagGGAATTCTTCAACCTGACATGTGGGGTGTAACTCCTTCAAGTCGGTGGGATTGGGATGCTCTTAGGAAAATGATATCAGAAAATGGAATAAGAAATTCAC
attgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagttttccttttaaaaaatgcccaaaaagattggcagttatccatgttgtaattgagactactatgttctagctgcttagatatccattgtatttgtagGGAATTCTTCAACCTGACATGTGGGGTGTAACTCCTTCAAGTCGGTGGGATTGGGATGCTCTTAGGAAAATGATATCAGAAAATGGAATAAGAAATTCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - -aaaaaat
- - - - - - - - - - - - aaaaaga
- - - - - - - - - - - - - - - - - - - - - ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttag