Sequence
atgc intronic sequence ATGC exonic sequence...ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtcatgtgttgtatttgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G43500.1 (Glycine max), 3'ss of exon 4
ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtc--atgtgttgtatt----tgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
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---------------------gtattttgaaaattggttgatgtttattatattgtcttgctctgaggatacttggagaggttaaattaagatgtcattcttccagGCATTGGAAGCCATTGAAAAGCTGCAGAAAAATGTGGATACACTTATAGTGATTCCAAATGACCGCCTGCTTGACATGGCTGATGAGCAGACACCTCTTC
upper sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G10030.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------------------------------------------ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtc--atgtgttgtatt----tgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
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gtgtgctaaaaaacttggaatttcctttttttcatttatactcatttgcagctagtcataaatcatgtgttattaacttataataatcttagttatggatgaactatgatcatgtattttgataattttttgatgtttattatattgtcttgcttcgaggatactttgagaggttaaattcagatgtcatcctttcagGCACTGGAAGCCATTGAAAAGCTGCAGAAAAATGTGGATACACTTATAGTGATTCCAAATGACCGCCTGCTTGACATGGCTGATGAGCAGACACCTCTTC
upper sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G02110.1 (Glycine max), 3'ss of exon 3
--ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtcatgtgttgtatttgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
|| | || | || | || || | | | | | ||| || | || || || || || ||| ||||| |||| || |||| || || || || |||| | |||| || |||||||||||||| ||||| ||||| |||||||||||||| || || || ||||| |||| |||||||
ttttatgtagcagataagagtctgtggttcatctgaaacttgtagtttgtcgtttgaaatctagaaaataagtctctagt-ttgcatttggtttt-cttcagGCCTTTGAAGCCATCGAAAGGCTGCAGAAAAATGTTGACACACTTATAGTTATTCCAAATGATCGTCTGCTTGACATAGCTGATGAGCAGATGCCTCTTC
upper sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G46530.1 (Glycine max), 3'ss of exon 3
--ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtcatgtgttgtatttgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
|| | | | || |||| || | | | | | ||| | | || || || || || ||| ||||| |||| || |||| || || || || |||| | |||| || |||||||||||||| ||||| ||||| ||||| |||||||| || || || ||||| |||| |||||||
ttttatctagctgataagagtctatggttcatctgaaacttttagtttgtgttttgaaatctagaaaataagtctctagt-ttgcatttggtttt-cttcagGCCTTTGAAGCCATCGAAAGGCTGCAGAAAAATGTTGACACACTTATAGTGATTCCAAATGACCGTCTGCTTGACATAGCTGATGAGCAGATGCCTCTTC
upper sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 3
ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtcatgtgttgtatttgct--tttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
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----------gtaatgtgtgt-tgacaccgtttct-tgttgaatgggtttaagtttaaagtcttgttatggatc-tatgcctgatttggttatttcctctagGCACTGGAAGCTATTGAAAAGCTCCAAAAGAATGTTGATACCCTTATCGTGATTCCAAATGATCGTCTGCTAGATATTGCTGATGAACAGACGCCACTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgtactatattgagttccaaacagtcatgtgttgtatttgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
tttgcttttgtttt CT-rich tract
ttttgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtcatgtgttgtatttgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - ccaagtt
- - - - - - - - -gcttatg
- - - - - - - - - - - - - - tgcagct
- - - - - - - - - - - - - - - - - - -atcaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgt
