Sequence
atgc intronic sequence ATGC exonic sequence...tttagctttttgatattgtttctatctgtttatttatttggtttgctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G30780.1 (Glycine max), 3'ss of exon 2
tttagctttttgatatt-gtttctatctgtttatttatttg--gtttgctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
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-ataccatactactttccgtatttagtttcttgtgtatatgtagctagcccatttccaaccattgtaatgttct--tttcctctcttttttctcaatgtacagGGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATGTTCATTTATAACCAG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 2
-----------------tttagctttttgatattgtttctatctgtttatttatt--tggtttgctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
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gtcagtttttaagttttccaagtgttaagatatatgccttattttcttgtgcacaagtatgtagtcaatttctaatcatcgctatcttgtctggctctgcaatttgttttactatacagGGAACATACAGCACCCAGATATTCTCATTGGCAGTTCTTTTGTCTAGCATGTTCATTTATAACCAG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G24260.1 (Glycine max), 3'ss of exon 2
---------tttagctttttgatat-tgtttctatctgtttatttatttggtttgctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
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gtcagttttccaaatgttaagatatatgcttattttcttgtgtacaagtatgtagtcaatttctaatcattgctatcttgtcttgctctgcaatttgttttattatacagGGCACATACAGCACCCAGATATTCTCACTGGCAGTTCTTTTGTCTAGCATGTTCATTTATAACCAG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S139_74V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------------------------------------------tttagctttttgatattgtttctatctgtttatttatttggtttgctaactcccagtgattatgttttcttact----ttcctatg---tttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
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gtaagttcttttctttacgacttgattttagtattgttccttgctcgactggatctatgttttaagttcccattccaactcccttcttccctcccaatt--tttcccaccttcacccccttccttcttctcactagacttactgttgactgtatccacatttggcagGGAACATACAGCACACAAATCTTCTCCTTGGCTGTTTTGTTATCAAGCATGTTCGTATATAATCAG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S265_7V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------------------------------------------------------------------------tttagctttttgatattgtttctatctgtttatttatttg-gtttgctaactcccagtgattatgttttct-tactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
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gtaaaattttccttctagactcgattttagtatttctgactttcctggcttgatccgattcgttggaaatggttctatgcatttcttttatgttaatatatttttttgtttccatatgaagagtgttttgtacatgaagtttgtttttgatttggagttctactcattgccgagcttgtgtacactggacagGGAACATATAGCACACAGATATTCTCCTTAGCAGTCTTATTGTCGAGTATGTTTGTTTACAATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
ttatgttttcttactt CT-rich tract
tatgtttttctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttagctttttgatattgtttctatctgtttatttatttggtttgctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
- - - - - - - - - - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - actccca