Sequence
atgc intronic sequence ATGC exonic sequence...ttttacacgattatcaaatggttggtcattagaatttatgcatgtgtttactttcaatttttctctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G29420.1 (Glycine max), 3'ss of exon 5
--ttttacacgattat-caaatggttggtcattagaatttatgcatgtgtttactttcaatttttctctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
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tatgctgaaagactagatttgtaatttattgtcacagttagt-tatgtaactaaataagaggaagtacatattcttatggattttgttcttt--tcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGTAAAATTGTTGAGGGTGTTCTTAGCCACCAAATGAAACAGTTTGTGATTG
upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G43390.1 (Glycine max), 3'ss of exon 5
ttttacacgattatcaaatggttggtcattagaatttatgcatgtgtttactttcaatttttc-tctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
||| | | | | | | ||| | || || ||| ||| ||| | | | | ||||| | |||| | | ||||||||||| |||| ||||| ||||| ||||| ||||||||||||||||| || |||||||| |||||||| || |||||| | || |||||||| |||
tttaatcagcacgttattaaaattattattcgtatacataaatgatcttatttttagcagtgggtactcatttttaatatatttttttcttttatccacaGAACAAGGATGTAAGTGATGCAATTCAAAAGGTTGCTGCTGCCTATGACTGTAAAATTGTTGAGGGTGTTCTTAGCCACCAAATGAAGCAGTTTGTTATT-
upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G18500.1 (Glycine max), 3'ss of exon 5
ttttacacgattatcaaatggttggtcattagaatt--tatgcatgtgtttactttcaatttttctctttattttgttcactaagttttgtggttgtg---gcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
|| | ||| | || | | |||| ||| ||| ||| || | | || | | | ||||||| | | | |||| | || | ||||||||||| |||| ||||| ||||| ||||| ||||||||||||||||| || || ||||| |||||||| || |||||| | || |||||||| ||||
--ttgt-ctatt-ttaatcagctctgtattaatattattattcataatttcatataca-taaatggccttattttaattagtgtttttttttcttttatccacagAACAAGGATGTAAGTGATGCAATTCAAAAGGTTGCTGCTGCCTATGACTGTAAAATCGTTGAGGGTGTTCTTAGCCACCAAATGAAGCAGTTTGTTATTG
upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G07420.1 (Glycine max), 3'ss of exon 5
ttttacacgattatcaaat-ggttggtcattagaatttatgcatgtgtttactttcaatttttc-tctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
|| | | | | | | || || ||| ||| | ||| ||| | | | |||| | | | | || | | || ||||||||||| ||||| || || ||||||||| | || || || ||||| || || |||||||| |||||||| || |||||| | ||||||||||||||||
--ttgtatgttgaaaggctagatttgtaatttattgttacagttatgtaactacacaagtggccgtgcatattcttatgcttttttcttcttttcctgacagAACAAGGATGTAACTGAAGCAATTCAGAAGATTGCCGCAGCGTATGATTGTAAAATTGTTGAGGGTGTTCTTAGCCACCAAATGAAACAGTTTGTGATTG
upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S80_199V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------ttttacacgattatcaaatggttggtcattagaatttatgcatgtgtttactttcaatttttctctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
||| | ||| | || | ||| | || |||| ||| || || |||| | | || | | || | | ||| || ||||||||||| || ||||| |||||||||||||| || | || || ||||| ||||||| ||||||||| || ||||| || || || ||||| || ||||
gtctgtccttgattgtttcccttgatactaaatttacaggt--tcaggattt-cgcaataacccaccctcgctttta----tggtactgatgatgaaataactttgttttg-cagAACAAGGACGTGACAGAAGCTATTCAGAAGGTAGCGTCGGCATACGACTGTAAGATTGCTGAAGGTGTGCTGAGTCATCAGCTGAAGCAGTTGGTCATTG
upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S264_34V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------ttttacacgattatcaaatggttggtcattagaatttatgcatgtgtttactttcaatttttctctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
| | || || | || | |||| || || || | || || || ||| ||| | | | || | || | | | |||||||||||| || || ||||| ||||||||||| || |||||||| || |||||||||| || ||||| | ||||| || || || |||||||| || |
gtatgcttctgtttgtctcacttcatattaaactcactggtttttgc--ttcat---tatggtttgttcaaatatttatgatagtaatgaaaaaatgattct----ctttcgcagAACAAGGACGTGACCGATGCAATTCAGAAGGTAGCGGCTGCCTACGATTGCAAGATTGCCGAGGGTGTGTTGAGTCATCAGCTCAAGCAGTTTGTCATCG
upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S119_137V6.1 (Physcomitrella patens), 3'ss of exon 4
---------ttttacacgattatcaaatggttggtcattagaatttatgcatgtgtttactttcaatttttctctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
| | | | ||||| |||||| | | | || | ||| ||| | || || | || || || | |||| |||||||| || ||||| || || |||||||||||||||||||| || ||||| ||||||| ||| ||||| | ||||| ||| | |||||||||||||| |
tcctatttcctctgcgcagttatctttcaattggtc-ctgtatatgatacttgtcattagaca-ggctcttggattaaacttattgtggaactgttgta-------cagAACAAAGACGTAACGGAAGCCATTCAGAAGGTGGCTGCTGCATACGACTGTAAGATTGCTGAGGGTGTGTTGAGTCATCAAATGAAACAGTTTGTGATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttactttcaatttttctctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
tttcaatttttctctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttacacgattatcaaatggttggtcattagaatttatgcatgtgtttactttcaatttttctctttattttgttcactaagttttgtggttgtggcagAACAAGGAAGTAACAGATGCTATTCAGAAGGTGGCTGCTGCCTATGACTGCAAGATTGTTGAAGGTGTTCTCAGTCACCAACTAAAACAGTTTGTGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - tggttgg
- - - - - - - - - - - - - - - - - - - -gcatgtg