Sequence
atgc intronic sequence ATGC exonic sequence...ataccactatacttcttgtttatgtcatccaataagcctgtaaactcattccaagaaactggtttgtttagtgacacaaaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g44710.2 (Oryza sativa), 3'ss of exon 3
ataccacta--tacttcttgtttat---gtcatccaataagcctgtaaactcattccaagaaactggtttgtttagtgacacaaaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
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-gagcgctaagcacttcccgtctattcagctttgatacaaccatgttccatgtttccatgctgttatactgcctagt----tgattttccctttttcttaattagATAAGAGATACCAGTGTTCTGGTACGGTTGAGGCCTGCATGGGAGGATCTTCGGAGCTACTTAATTGCAAGAGGTCGCAAACGTTTTGAGGTATATGTGT
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g42600.1 (Oryza sativa), 3'ss of exon 2
----ataccactatacttcttgtttatgtcatccaa-taagcctgtaaactcattccaagaaactggtttgtttagtgacacaaaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
| || | || | || |||| | | | | || | | || | ||||| | | || | ||||||| | | | |||| | ||||| ||||| ||||| | |||| || ||||||||||| |||||||||||| | | ||| || || ||||| ||||||||||| ||||| |
cagcgtgccttttcacattgctttgatgtggcctgactttggttgcataagt-ttgtacaaaacttccaggctaag----gctttttttttttttttttgtgtagATAAGGGATACCAGTGTTCTTGTACGTTTAAGGCCAGCATGGGAGGATCTCCGGAGCTACTTGATTGCTAGAGGTCGCAAACGTTTTGAGGTCTATGTGT
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G31510.1 (Glycine max), 3'ss of exon 2
ataccactatacttcttgtttatgtcatccaataagcctgtaaactcattccaagaaactggtttgt-ttagtgacacaaaatttttttatatctcc--acagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
| || | | | || |||| || || || | | | | ||| || | | | || ||| | | || | ||| | ||||||||||||| ||||| ||||||||| | |||||||||||||| || |||||||||||||| |||||||| |||||||||||||||||||||| |||||
--aacatga-atggatggtacatgttttctgtagtttcttataattaaaacatgtagacttgtcagaatcattggtccaacaataacttgtgtctttggaaagATTCGTGATACTAGTGTTCTTGTGAGGTTGAGACCTGCATGGGAAGATCTCCGGAGCTACCTGACTGCAAGAGGGCGCAAGCGTTTTGAGGTTTTTGTTT
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G07800.1 (Glycine max), 3'ss of exon 2
ataccactatacttcttgtttatgtcatccaataagcctgtaaactcattccaagaaactggtttgt-ttagtgacacaaaatttttttatatctcc--acagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
| || | | | | ||| || || || | | | | ||| | | | | || || | | || | ||| | ||||||||||||| ||||| ||||||||| |||||||||||||||| || || ||||||||||| |||||||| |||||||||||||||||||||| |||||
--aacatga-atggatgatacatggtttctgtagtttcttgtaattaaaacatgtagacttttcagaatcattggtctaacaatgacttgtgtctttggaaagATTCGTGATACTAGTGTTCTTGTGAGGTTAAGACCTGCATGGGAAGATCTTCGGAGCTACCTGACTGCAAGAGGGCGCAAGCGTTTTGAGGTTTTTGTTT
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 2
ataccactatacttcttgtttatgtcatccaataagcctgtaaactcattccaagaaactggtttgt-----ttagtgacaca--aaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
| | || | ||| | | ||| | | | |||||| | || | | | | | ||||| | | | | | ||| ||| | | | | ||||||||||||| ||||| ||||||||| | |||||||||||||| || || ||||||||||| |||||||| || ||||||||||||||||||||||| |
--ataaatagataagctgt--gttttatctattttg--tgtaaaat-atactagcagatagatttgtcagaatcattaatctaacaaaaatttgtgtgtttgacaagATTCGTGATACGAGTGTTCTTGTGAGGTTGAGACCTGCATGGGAAGATCTTCGGAGCTACCTTACTGCAAGAGGACGCAAGCGTTTTGAGGTTTATGTCT
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G31430.1 (Glycine max), 3'ss of exon 2
--ataccactatact---tcttgtttatgtcatccaataagcctgtaaactcattccaagaaactggtttgtttagtgacacaaaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
| | || || | || | ||| | ||| || | | || | || | | | ||||| |||||| ||| | | | ||||||||||||| ||||| ||||||||| | |||||||||||||| || || ||||||||| | |||||||| |||||||||||||||||||||||||| |
ataaatagataagctgtgttttatctattttatctaaaa----tatacaagcagatagatttgtcagaatcattagtctaacaaaaatttgc-gtgtttgggaagATTCGTGATACGAGTGTTCTTGTGAGGTTGAGACCTGCATGGGAAGATCTTCGGAGCTACTTGACTGCAAGAGGGCGCAAGCGTTTTGAGGTTTATGTCT
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G21670.1 (Arabidopsis thaliana), 3'ss of exon 2
--------ataccactatacttcttgtttatgtcatccaataagcctgtaaactcattccaagaaactggtttgtttagtgacacaaaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
||| | | || || | ||| | | | ||| || | | | || | | | ||| | ||| | ||| | |||||||||||||||||||||| |||||||| | || || |||||||||| || || ||||| | || |||| ||||| ||||||||||| || |||||||
cttgtggtataaccttttatttttcatttgctcctttctg-gagcacctagatttttctgaat-------tcttgtggctgaatctgcattcctatatttacacacagATTCGTGATACAAGTGTTCTTGTGAGAATGAGGCCCTCATGGGAGGAACTTCGAAGCTATTTGACAGCAAAAGGGCGTAAGCGTTTTGAAGTATATGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattccaagaaactggtttgtttagtgacacaaaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
tttttttatatctcc CT-rich tract
tgacacaaaatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataccactatacttcttgtttatgtcatccaataagcctgtaaactcattccaagaaactggtttgtttagtgacacaaaatttttttatatctccacagATTCGTGATACAAGTGTACTTGTGAGGCTAAGACCTGCATGGGAGGACCTCCGGAGCTACCTAACTGCAAGGGGGCGCAAGCGTTTTGAGGTTTATGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- accacta
- - - - - -cttcttg
- - - - - - - - - - - - tcatcca
- - - - - - - - - - - - - - - - - -gcctgta
- - - - - - - - - - - - - - - - - - - - - - -tcattcc
- - - - - - - - - - - - - - - - - - - - - - - - - - aagaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gacacaa