Sequence
atgc intronic sequence ATGC exonic sequencegtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g10640.1 (Oryza sativa), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttt----tttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
| | | ||| ||| | || |||| || ||| | ||| | || || | | || | | | ||| || | | |||||| | |||||| || || ||||| || || || ||||| |||||||||||||| ||||| ||||| || ||||| |||||||| || || | ||||| |
--------------------taaactaacataaaatttattaatgtggaaaatcaag--aatttcctagtttgtttcataacttactcttgactgttctttgtacttctgcttggcattcagGGAGTGCTCCTCTTACTGCTGTCCAACTGCTCTGGGTTAACATGATCATGGACACACTAGGAGCACTGGCATTGGCAACTGAACCTCCAAACGATGAACT
upper sequence: Vv07s0129g00180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G006977_T01 (Zea mays), 3'ss of exon 5
----gtaagaagaccccatcttgcttcttccatttcaaagt----tacttccttgttttgtc--aaataaacttcttcttttttctccctacattttttttattcctttttttttt--caaacact---tcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
| || || || | ||| || | |||| | | | || ||| |||| || ||| || | || | | | ||| | || | | || ||||| | |||||| ||||| ||||| || | || ||||||||||||||||||||||||||||| || || ||||| || || || || || | |||| |
gtacatccgatatcctgtatatgagttcgtggtttggaaatcctctactacttgagcgtatcctgaatgtactttttgtttatttcataaatatatgtctcattgttcgcattcatgctgattgctgattcagGGAGTGCTCCTCTCACTGCTGTGCAATTGCTCTGGGTCAACATGATCATGGATACACTGGGTGCGCTGGCATTGGCGACAGAACCCCCAAACAATGAACT
upper sequence: Vv07s0129g00180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G317270_T01 (Zea mays), 3'ss of exon 3
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
| ||| || ||| || ||| | | | | | | | | | | | | || | || | | |||| | |||||||| || || || ||||| |||||||| |||||||||||||| || |||||||| || || | || || ||||| || | || || |
-----------------------gtaagcttccaaagaactg----gtgaaagcaatctgtcgccatgcatgcttgcttgatctgctgctgctgctgcttgtgttgtgga---tccagGGAGCGCTCCCCTGACAGCCGTGCAGCTGCTGTGGGTGAACATGATCATGGACACGCTGGGAGCGCTGGCGCTGGCCACGGAGCCTCCGAACGACGAGCT
upper sequence: Vv07s0129g00180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G40130.2 (Glycine max), 3'ss of exon 5
----------------------------------------------------------gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgt-caaataaacttcttcttttttctccctac-attttttttat--tccttttttttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
| ||| | | | || | || || || | | | || | ||| | |||| || | |||||| | || | || | |||| || | | | || | | |||||| ||| |||||||| |||||||| || ||||||| |||||||| ||||| ||||||||||| ||||| | || ||||| || || | |||||| ||
gttagaaagttaatttaattttgttaccacaaaatagggttatgtacttacataaacagcaaggaactgcactttttttgttttcacaccagcctgcatgacagattataaataaaaacactttttttgttttcttcttattagttatcttatgatcttacatgtattttctctatccagGAACTGCACCCCTCACAGCTGTTCAACTCTTGTGGGTGAACATGATAATGGACACACTGGGAGCACTTGCTCTTGCTACTGAACCTCCAAATGATGATTT
upper sequence: Vv07s0129g00180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G05190.2 (Glycine max), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaa---agttacttccttgttttgtcaaataaacttcttctt-ttttctccctacattttttttattccttttttttttcaaaca--------cttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
|| |||| | || || | | ||| | | | | | || || | | ||||| || || | || || ||| || | || | | | || || || || |||||| ||| |||||||| |||||||| || ||||||| |||||||| ||||| ||||||||||| ||||| | || ||||| || || | |||||| ||
gttagaaagtt--aatttaattttgttaccccaaaacaatagcctgcatgacaggttataaaaactgttttttgtgttttcttcttattattagttatcttatgatcttacatgcaatttctctctccagGAACTGCACCCCTCACAGCTGTTCAACTCTTGTGGGTGAACATGATAATGGACACACTGGGAGCACTTGCTCTTGCTACTGAACCTCCAAATGATGATTT
upper sequence: Vv07s0129g00180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G37640.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
| || | || | ||| ||| | | ||| || || || || | ||| | | | || | || | |||||||| |||||| | || |||||||| | ||||||| |||||||||||||| ||||| ||||||||||| ||||| || |||||||| | || || |
------------------gtaggtttagtaagaataccaattcaatgtctcg--aaaagaatcattttggattcct---------tgtttgacacagctcttatgataatc--ttcagGAAGTGCTCCTTTAACTGCTGTTCAATTGTTGTGGGTGAACATGATCATGGACACACTTGGAGCTCTTGCTTTAGCTACAGAGCCACCAAACGACGAGCT
upper sequence: Vv07s0129g00180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G22950.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
||||| | || | ||| ||| ||| | | || |||| | ||| | || | | ||||| || || |||| || || || |||| |||||| |||||| || || |||||||| || || ||||| |||||||||||||| ||||| ||||||||||| |||| || || || || | | || |
gtaagttaaagaaat-tagctgattctgtttttattcaaattttcatttttttacaattatattgtcttcgtttctatct---ttacttttgtttctaaattaattca-------cagGAAGTGCTCCTCTAACTGCTGTTCAACTGCTTTGGGTTAACATGATCATGGACACACTTGGAGCTCTTGCTCTAGCTACAGAACCTCCGAACAACGAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcttttttctccctacattttttttattccttttttttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
ttttctccctacattt CT-rich tract
tacattttttttattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaagaccccatcttgcttcttccatttcaaagttacttccttgttttgtcaaataaacttcttcttttttctccctacattttttttattccttttttttttcaaacacttcagGAAATGCTCCCCTCACGGCTGTTCAGCTTCTGTGGGTCAACATGATCATGGATACACTGGGAGCTCTTGCATTAGCAACTGAGCCACCTACTGATGACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT