Sequence
atgc intronic sequence ATGC exonic sequence...tttacaattttggtccattttctaggaaggcctctagaattgcagtgagtttcattgcatattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 10
-------------------------------------------tttacaattttggtccattttctaggaaggcctctagaattgcagtgagtttcattgcatattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
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gtaagttccattacttctatgcttttgttgtgatgctgttacaattgcaatttacgcttgttacctatgctggttttatcagtggca-tatattttcctgcaagatatga--tagcgagttta--atgtt--ttatattgcagGTTGTGCAAAGGTTTCAAGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGATA
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 10
-------------------------------------------tttacaattttggtccattttctaggaaggcctctagaattgcagtgagtttcattgcatattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
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gtaagttccattacttctatgcttttgttgtgatgctgttacaatcgcaatttacgcttgttacctatgctggttttatcagtggca-tatattttcctgcaagatatga--tagcgagttta--atgct--ttatattgcagGTTGTGCAAAGGTTTCAAGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGAGA
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 8
tttacaattttggtccattttctaggaa--ggcctctagaattgcagtgagtttcattgc--atattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
||| || | ||||| | | | | ||| | | || || || | ||||| || | |||| | | || | |||||||| || ||||||| ||||||||||| || ||||| || |||||||| || ||||| |||||||| ||||| ||||| ||| || | |||||||| |
---ctaatgatgctttattttgtggaagttgcatactatgagtagttagacttctatggttaatattgaatagagtttcatcaa-attatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 9
tttacaattttggtccattttctaggaaggcctctagaattgcagtgagtttcattg--catattaaaaacctgc--tcatt--tgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
| || | | | | | | | | || | ||| || |||| ||| | |||| | | ||| || | || | |||||||||||||| ||||||| |||||| | ||||||||||| ||||||||||||||||| || |||||||||||||||||||| ||| | || || |||||||| |
---ataaagtgga---aactgggaagcatggcttttttgttgtttgtttttctattggttttataattgaccttcaatgattgtcatgtttctgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAACTTGCTGCAGAATCTCCACAAGGAATTCTTCGAACTCCTGACA
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 10
tttacaattttggtccattttctaggaaggcctctagaattgcagtgagtttcattg--catattaaaaacctgc--tcatt--tgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
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------gataaagtggaaatgggaagcatgcctttcttgttgtttgtttttctattggttttataatttaccttcagtgattgtcatgtatccgcctttttctcagGTTGTCAAGCGGTTTCAAGAATTATTTTCTCAGACCAAGTATAAGGAGGCTGCGGAGCTCGCTGCAGAATCTCCACGAGGAATTCTTCGAACTCCTGACA
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 10
tttacaattttggtccattttctaggaaggcct--ctagaattgcagtgagtttcattgcatattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
|| | | || | | | | | ||||| | || ||| ||| || | | || | | | ||| | || || ||||||||||||| |||| || |||||| | ||||||||||| ||||||||||||||||| |||||||||||| |||| ||||| ||| | || ||||||||||| |
cttcctagtt--gattaatctgtgggaagcatgggttttcttttcaggttgttatgtttctttttgtacctatagttattgttatgtttctttttttctcagGTTGTTAAGCGTTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAGCTTGCTGCACAATCGCCACAAGGAGTACTTCGTACTCCTGACA
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 10
tttacaattttggtccattttctaggaaggcctctagaattgcagt--gagttt--cattgcatattaaaaacc-tgctcatttgtg-atcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
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------ttcctagttgatttatcggtgggaagcatgggttttcttttcaacttttacatttttttttggtacctatagttattgttatgtttcatttttttttcagGTTGTTAAGCGTTTTCAAGAATTATTTGCTCAGACCAAGTATAAGGAAGCTGCAGAGCTTGCTGCACAATCACCACAAGGAGTACTTCGTACTCCTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagtttcattgcatattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
ttatttctc CT-rich tract
attgcatattaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttacaattttggtccattttctaggaaggcctctagaattgcagtgagtttcattgcatattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - ccatttt
- - - - - - - - - - - - ggaaggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgctc