Sequence
atgc intronic sequence ATGC exonic sequence...gatattaacattacatggcaaagttttaacaagttttcctctgtttggtttcctctttttgcatgtgttctctgaattcctttttctgtctttatttcagGAGAATTACACTGCTCCTAGGATGGTCCTTGCGGCTTCTGGAATTGAACATGAAGAGTTTTTGTCCATTGCAGAGCCACTTGTTTCTGATCTTCCCAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g53700.1 (Oryza sativa), 3'ss of exon 4
gatattaacattacatggcaaagttttaacaagttttcctctgtttggtttcctctttttgca-tgtgttctctgaattcctttttctgtctttatttcagGAGAATTACACTGCTCCTAGGATGGTCCTTGCGGCTTCTGGAATTGAACATGAAGAGTTTTTGTCCATTGCAGAGCCACTTGTTTCTGATCTTCCCAGTG
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------------------gtaagattcatcaacttgccatttatattgtttttttgttagaaagtgcgtgctttgacatatgcttgcattgatgaattcagGAAAATTACACAGCACCTAGGATGGTCCTTGCGGCATCTGGAGTTGAACATGATGAACTAGTTTCAATTGCTGAGCCACTTCTGTCGGATCTTCCCAGTG
upper sequence: Vv10s0003g03230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G21380.1 (Glycine max), 3'ss of exon 4
-----------------------------------gatattaacattacatggcaaagttttaacaagttttcctctgtttggtttcctctttttgcatgtgttctctgaattc--ctttttctgtcttt---atttcagGAGAATTACACTGCTCCTAGGATGGTCCTTGCGGCTTCTGGAATTGAACATGAAGAGTTTTTGTCCATTGCAGAGCCACTTGTTTCTGATCTTCCCAGTG
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gtaagatctgttatcctttctgttactacataaatcctactggtattaatttatgcaacacttgtaattttgactgttttttctttctgttttccccttgcaatgtgagaatctaattgttgctggatgtgaaaaatcagGAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCTGGGGTTGAGCACGAAGAGCTTCTATCTATTGCTGAGCCACTTCTCTCTGATCTACCAAAGG
upper sequence: Vv10s0003g03230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G01720.1 (Glycine max), 3'ss of exon 4
-----------------------------------------gatattaacattacatggcaa----agttttaacaagttttcctctgtttggtttcctctttttgcatgtgttc-tctgaattcctttttctgtctttatttcagGAGAATTACACTGCTCCTAGGATGGTCCTTGCGGCTTCTGGAATTGAACATGAAGAGTTTTTGTCCATTGCAGAGCCACTTGTTTCTGATCTTCCCAGTG
| ||||| ||| || |||||| || | ||| | |||| ||| | | || || ||| | | | ||| | ||||||||||||||| || ||||| ||||| ||||| || ||||| |||| || |||||| || | || ||||| ||||||||| | |||||||| || | |
gtaagatctgttatcctttctgatactgcatgaatcctactggtattagt-ttatgcaacacttgtagtttttaccattttctttttgttattcccccttggtatctatttgagaatctaattgttgctggatgtaaaaaaatcagGAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCTGGGGTTGAGCACGAAGAGCTTCTATCTATTGCTGAGCCACTTCTCTCTGATCTACCAAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtttcctctttttgcatgtgttctctgaattcctttttctgtctttatttcagGAGAATTACACTGCTCCTAGGATGGTCCTTGCGGCTTCTGGAATTGAACATGAAGAGTTTTTGTCCATTGCAGAGCCACTTGTTTCTGATCTTCCCAGTG
ttcctttttctgtctt CT-rich tract
tctttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatattaacattacatggcaaagttttaacaagttttcctctgtttggtttcctctttttgcatgtgttctctgaattcctttttctgtctttatttcagGAGAATTACACTGCTCCTAGGATGGTCCTTGCGGCTTCTGGAATTGAACATGAAGAGTTTTTGTCCATTGCAGAGCCACTTGTTTCTGATCTTCCCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - acatggc
- - - - - - - - - - - - - - - - - -ttcctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgtc