Sequence
atgc intronic sequence ATGC exonic sequencegtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G006977_T01 (Zea mays), 3'ss of exon 5
----gtaagaagaccccatcttgcttcttccatttcaaagt----tacttccttgttttgtc--aaataaacttcttcttttttctccctacattttttttattcctttttttttt--caaacact---taagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
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gtacatccgatatcctgtatatgagttcgtggtttggaaatcctctactacttgagcgtatcctgaatgtactttttgtttatttcataaatatatgtctcattgttcgcattcatgctgattgctgattcagGGAGTGCTCCTCTCACTGCTGTGCAATTGCTCTGGGTCAACATGATCATGGATACACTGGGTGCGCTGGCATTGGCGACAGAACCCCCAAACAATGAACT
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G317270_T01 (Zea mays), 3'ss of exon 3
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
| ||| || ||| || ||| | | | | | | | | | | | | || | || | | ||| | |||||||| || || || ||||| |||||||| |||||||||||||| || |||||||| || || | || || ||||| || | || || |
-----------------------gtaagcttccaaagaactg----gtgaaagcaatctgtcgccatgcatgcttgcttgatctgctgctgctgctgcttgtgttgtggatcc---agGGAGCGCTCCCCTGACAGCCGTGCAGCTGCTGTGGGTGAACATGATCATGGACACGCTGGGAGCGCTGGCGCTGGCCACGGAGCCTCCGAACGACGAGCT
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G40130.2 (Glycine max), 3'ss of exon 5
----------------------------------------------------------gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgt-caaataaacttcttcttttttctccctac-attttttttat--tccttttttttttcaaacacttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
| ||| | | | || | || || || | | | || | ||| | |||| || | |||||| | || | || | |||| || | | | || | | ||||| ||| |||||||| |||||||| || ||||||| |||||||| ||||| ||||||||||| ||||| | || || || || || | |||||| ||
gttagaaagttaatttaattttgttaccacaaaatagggttatgtacttacataaacagcaaggaactgcactttttttgttttcacaccagcctgcatgacagattataaataaaaacactttttttgttttcttcttattagttatcttatgatcttacatgtattttctctatccagGAACTGCACCCCTCACAGCTGTTCAACTCTTGTGGGTGAACATGATAATGGACACACTGGGAGCACTTGCTCTTGCTACTGAACCTCCAAATGATGATTT
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G05190.2 (Glycine max), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaa---agttacttccttgttttgtcaaataaacttcttctt-ttttctccctacattttttttattccttttttttttcaaaca--------cttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
|| |||| | || || | | ||| | | | | | || || | | ||||| || || | || || ||| || | || | | | || || || || ||||| ||| |||||||| |||||||| || ||||||| |||||||| ||||| ||||||||||| ||||| | || || || || || | |||||| ||
gttagaaagtt--aatttaattttgttaccccaaaacaatagcctgcatgacaggttataaaaactgttttttgtgttttcttcttattattagttatcttatgatcttacatgcaatttctctctccagGAACTGCACCCCTCACAGCTGTTCAACTCTTGTGGGTGAACATGATAATGGACACACTGGGAGCACTTGCTCTTGCTACTGAACCTCCAAATGATGATTT
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G37640.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
| || | || | ||| ||| | | ||| || || || || | ||| | | | || | || | || ||||| |||||| | || |||||||| | ||||||| |||||||||||||| ||||| ||||||||||| ||||| || |||||||| | || || |
------------------gtaggtttagtaagaataccaattcaatgtctcg--aaaagaatcattttggattcct---------tgtttgacacagctcttatgataatc--ttcagGAAGTGCTCCTTTAACTGCTGTTCAATTGTTGTGGGTGAACATGATCATGGACACACTTGGAGCTCTTGCTTTAGCTACAGAGCCACCAAACGACGAGCT
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G22950.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
||||| | || | ||| ||| ||| | | || |||| | ||| | || | | ||||| || || |||| || || || |||| | |||| |||||| || || |||||||| || || ||||| |||||||||||||| ||||| ||||||||||| |||| || || || || | | || |
gtaagttaaagaaat-tagctgattctgtttttattcaaattttcatttttttacaattatattgtcttcgtttctatct---ttacttttgtttctaaattaattcaca-------gGAAGTGCTCCTCTAACTGCTGTTCAACTGCTTTGGGTTAACATGATCATGGACACACTTGGAGCTCTTGCTCTAGCTACAGAACCTCCGAACAACGAGCT
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ18007 (Selaginella moellendorffii), 3'ss of exon 3
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttc---tccctacattttttttattccttttttttttcaaacacttaa---gGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
||| ||||| | || | | | | | | | | |||||| || || || | || | ||||| ||||| ||||| ||||| |||||||| || |||||||||| || |||| |||||||| | |||||||||||||| || ||||| |
--------------------------------------------------------gtaagattctttactctttaagttcttgggtctcatatgtgactttttcttctcttgtcgttgatcagGGACGGCTCCGCTCACTGCTGTGCAGCTGCTGTGGGTGAATCTGATCATGGACACGTTGGGTGCTCTTGCTCTGGCAACCGAGCCACCGACGGATGATCT
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ37088 (Selaginella moellendorffii), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttc---tccctacattttttttattccttttttttttcaaacacttaa---gGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
||| ||||| | || | | | | | | | | | |||| || || || | || | ||||| ||||| ||||| ||||| |||||||| || |||||||||| || |||| |||||||| | |||||||||||||| || ||||| |
--------------------------------------------------------gtaagattctttactctttaagttcttgggtctcatatgtgacattttcttctcttgtcgttgatcagGGACGGCTCCGCTCACTGCTGTGCAGCTACTGTGGGTGAATCTGATCATGGACACGTTGGGTGCTCTTGCTCTGGCAACCGAGCCACCGACGGATGATCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcttttttctccctacattttttttattccttttttttttcaaacacttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
ttttctccctacattt CT-rich tract
attttttttattcctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttaagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACCGAGCCACCTACTGATGACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT