Sequence
atgc intronic sequence ATGC exonic sequence...ctaaattgaattcattttattcattagcttcatctggaccctaatgcaatgttatattttcctgtgaaaaaaaaattataatttggactactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 3'ss of exon 3
ctaaattgaattcattttattcattagcttcatctggaccc---taatgcaatgttatattttcctgtgaaaaaaaaattataatttggactactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
| | | ||| | | | | | || | ||| | ||| | | | | | |||| | | || | ||| |||||| ||||||| || ||||| || ||||| |||||||| || ||| | ||||||||||| ||||| ||||| || |||| |||||||||||||| | ||
--agaatatatt-gtcgaagttctcaatttgttgaagacttgtgttatggcacagcactctggctagcatgtcaaaactaacaaaagcatttcctgctttcagTCTCAAGGCCGTGAATCTATAGCTGCAAAACTTGTAGCTAATATGATTACAGAAGCTGGTGCGAACCGTGTCCTTGTATGTGATCTTCATTCCAGTCAAG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G038791_T01 (Zea mays), 3'ss of exon 3
-ctaaattgaattcattttattcat-tagcttcatctg--gaccctaatgcaatgttatattttcctgtgaaaaaaaaattataatttggactactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
||| | || | | | || | ||| | || | ||| || | ||| || || | || | ||| | ||||||| | || || | ||||| || ||||| |||||||| || ||| | ||||| ||||| ||||| ||||| || |||| |||||||||||||||| | ||
cctagcatctatcaaatcaaaagatattgctgggtgtgacaaaaagtatgtctccttgtcatttttagtactaatagaagcacctttt----cctttttttcagTCCCAGGGCAGGGAATCTATAGCTGCAAAACTTGTAGCTAATATGATTACCGAAGCTGGTGCCAACCGTGTCCTTGTTTGTGATCTTCATTCTAGTCAAG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 3
--ctaaattgaattcattttattcattagcttcatctggaccctaatgcaatgttatattttc-ctgtgaaaaaaaaattataatttgga-ctactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
||| | || | | | | || ||||| | | ||| ||| | || | | || ||| || || | | |||||||| ||||||||||| || ||||| || |||||||| ||||| |||||| | ||||||||||| |||||||| || || ||||||||||| || |||||||||||||
tgctataaaaaagttgtcacaacta--aggttcatgattaacttaaaa-aatccaacatccaaattcagtaagtttaatcattatcttcatctactgttg-cagACTCAAGGACGTGAATCCATTGCTGCCAAGCTTGTCGCAAATTTAATTACAGAAGCAGGTGCAAATCGTGTACTTGCTTGTGACCTCCATTCTGGGCAGT
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 3
-ctaaattgaattcattttattcattagcttcatctggaccctaatgcaatgttatattttcctgtgaaaaaaa----aattataatttgga-ctactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
||| | || | | | | || ||||| | ||| ||| | | | | | || | ||| || || || | ||||||||| ||||| ||||| || ||||| || |||||||| ||||| |||||| | ||||||||||| |||||||| || || ||||||||||| || |||||||||||||
gctatagaaaaattgtcacaacta--aggttcattatttacttaa---aatatccaacatccaaattaagttgagtttaatcattatctgcatctactgttt-cagACCCAAGGACGTGAATCCATTGCTGCCAAGCTTGTAGCAAATTTAATTACAGAAGCAGGTGCAAATCGTGTACTTGCTTGTGACCTCCATTCTGGGCAGT
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S42_193V6.4 (Physcomitrella patens), 3'ss of exon 3
ctaaattgaattcattttattcattagcttcatctggacc-ctaatgcaatgttatattttcctgtgaaaaaaaaattataatttggactact---gttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
| ||| | | | | ||| | | || | || || || || | || || | | |||| || | || | || ||||| ||||| |||||||| || |||||||| || ||||||||| | || || || || || || || |||| || ||||||||||||||||| |||||||
--atattagcaagggtggaagtgatgccagcataacggcgattacttcactgccattttattctatgcagcacc--ttatgataagacctgttctggtgcacagACCCAAGGACGAGAATCTATTGCTGCCAAGCTAGTTGCAAATTTAATCACTGAGGCTGGAGCCAATAGAGTGCTGGCTTGTGATCTTCATTCAGGGCAGT
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S403_8V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------------------------------ctaaattgaattcattttattcattagcttcatctggaccctaatgcaatgttatattttcctgtgaaaaaaaaattataatttggactactgtttt--cagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
| | | | || || | || || | | | | | || | |||| ||| | || || ||| | | ||||| || ||||||||||| ||||| || || ||||||||||| | ||| |||||||| || || ||||| |||||||| || ||| | || || || |||||||| ||||
gttagaagattggttttacggggtcccttctgactcaatccagtccaacgtttatcacttaggaacgtccttgttagtcagattgtgtgtcagcgatacggagctttttgttttattgtacttataatttttatattggtgccactgtcttgacagACTCAAGGTCGAGAGTCGATTGCTGCCAAACTGGCTGCCAATCTCATCACTGAGGCGGGGGCAAACCGTGTGCTTACCTGCGACCTCCATTCTGGACAGT
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ12994 (Selaginella moellendorffii), 3'ss of exon 2
ctaaattgaattcattttattcattagcttcatctggaccctaatgcaatgttatattttcctgtgaaaaaaaaattataatttggactactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
| | || || ||||| | || || | | | | ||||||||||||||| || ||||| || || || || ||||| |||||||| | |||||||| ||||| ||||| |||||||| || || | || || ||||||
------------------------------------gtagtcactgtgatccagctttttctttc-------aatctacacgtcgtgtgatgtttttcagACTCAAGGACGTGAATCGATTGCAGCAAAGCTTGTAGCAAATCTTTTGACAGAAGCCGGTGCGAACCGTGTTCTTGCATGCGACTTACACTCGGGGCAGG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ14005 (Selaginella moellendorffii), 3'ss of exon 2
ctaaattgaattcattttattcattagcttcatctggaccctaatgcaatgttatattttcctgtgaaaaaaaaattataatttggactactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
| | || || ||||| | || || | | | | ||||||||||||||| || ||||| || || || || |||||||||||||| | |||||||| ||||| ||||| |||||||| || || | || || ||||||
------------------------------------gtagtcactgtgatccagctttttctttc-------aatctacacgtcgtgtgatgtttttcagACTCAAGGACGTGAATCGATTGCAGCAAAGCTTGTTGCAAATCTTTTGACAGAAGCCGGTGCGAACCGTGTTCTTGCATGCGACTTACACTCGGGGCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaatgttatattttcctgtgaaaaaaaaattataatttggactactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
ctgttttc CT-rich tract
ttatattttcctgtga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaaattgaattcattttattcattagcttcatctggaccctaatgcaatgttatattttcctgtgaaaaaaaaattataatttggactactgttttcagACTCAAGGGCGAGAATCAATCGCTGCCAAACTTGTTGCAAATCTCATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- aaattga
- - - - - - - - - - - - - - - - - - -accctaa
- - - - - - - - - - - - - - - - - - - - - - - caatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa