Sequence
atgc intronic sequence ATGC exonic sequence...tagttggtgctctcagtgagtgactttagccaagtgtgaacatcgtgcatttttttgtttctgtattgaatgacaaagaaatacatttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g08550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G123305_T01 (Zea mays), 3'ss of exon 4
tagttggtgctctcagtgagtgactttagccaagtgtgaacatcgtgcatttttttgtttctgtattgaatgacaaagaaataca---tttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
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--ctagtttttccttataaacaacttgagacgt-tctggttcctgaataagttttcagaagagctttgtattttgatcttttctggatgttgaacttttgcagGATATCTATTGTTTGAATGCTGATGGGTCTCTGTTTGATGCTGCACTTATTTCAGCAGTGGCTGCCTTTACACATT
upper sequence: Vv08s0007g08550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM5G886044_T02 (Zea mays), 3'ss of exon 3
tagttggtgctctcagtgagtgactttagccaagtgtgaacatcgtgcatttttttgtttctgtattgaatgacaaagaaataca---tttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
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--ctaatttttctttataaacaagttgagatgt-tctggatcctgaataagttttcataagagctttgtattttgatcttttctgggttttgaacttttgcagGATATCTATTGCTTGAATGCTGATGGGTCTCTGTTTGATGCTGCACTTATTTCAGCAGTGGCTGCCTTCACACATT
upper sequence: Vv08s0007g08550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G27080.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------tagttggtgc-tctcagtga-gtgactttagccaagtgtgaacatcgtg--catttttttgtttctgtattgaatgacaaagaaatacatttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
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gtaagctttctatatggactacagttacgaaatttcacaaatcaatcatagaatgaatggatagcacaccacattggtgtgaggtaacctgactttgtttcctctgattgtgatgttatcattttattgaatgacagaatgctgcctttatcat---gcagGATATCTACTGTTTGGATGCCGATGGTGCTCTTTTTGATGCTGCATTACTTTCTGCCGTTGCTTCCTTATCTCATT
upper sequence: Vv08s0007g08550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G22250.2 (Glycine max), 3'ss of exon 6
------------------------------------------------------------tagt-tggtgctctcagtgagtgactttagccaagtgtgaacatcgtgcatttttttgtttctgtattgaatgacaaagaaatacatttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
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gttagcttttatatggacggcatttaccaaatttcacatatcagctatagaaagagtgcatagcacacctcattcggtgtgaggcactctgtctttgtttgctctgatggtgttgttattaatctattgaacgacagaatgctgccttctctatcatgcagGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
upper sequence: Vv08s0007g08550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G50270.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------------------tagttggtgctctcagtgagtgactttagccaagtgtgaacatcgtgcatttttttgtttctgtattgaatgacaaagaaatacatttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
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gtaagcttgtttatggactgcattaaccaaatttcacatataaaccattgaaagaatgtatagcacaccacatttggtgtgaggtac-actgactttgttagtttgtttgctctgattgtgttattatcaatctattgaatgacagaatgctgccttctttatcatgcagGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCGTTACTTTCTGCCATTGCTGCCTTATCTCATT
upper sequence: Vv08s0007g08550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G60080.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------ta-gttggtgctc-tcagtgagt-gactttagccaagt---gtgaacatcgtgcatttttttgttt--ctgtattgaatgacaaagaaat--acat--ttggtatctgg---------cagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
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gtgagtactcgttggtcttatatcggtgcttgtccgtcagttgattcacatctattcttctagggatctttctctttgatatttaactgagttctctagcatatatatgaacattgttgctctctgaaatttctcatagGACATATATTGCCTGGATGCTGATGGTGCTCTCTTTGATGCTGCTCTGCTTGCTGCTGTCGCAGCCTTCTCCAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcatttttttgtttctgtattgaatgacaaagaaatacatttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
aaagaaatacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagttggtgctctcagtgagtgactttagccaagtgtgaacatcgtgcatttttttgtttctgtattgaatgacaaagaaatacatttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
tagttgg
- - - -tgctctc
- - - - - - - - - - - - -ttagcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagaaa