Sequence
atgc intronic sequence ATGC exonic sequence...ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccattttctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g52340.1 (Oryza sativa), 3'ss of exon 2
--ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccattttctgaagcctgttgatccatttctatggt-agGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
| ||| | ||||| |||| | |||| | |||| | | | | | | | | |||| || || || | ||| ||| ||||||||||||||||||||||||| |||||||| ||||| | | ||||||| ||||| ||||| ||||| || |||||||| |||||
gactattttatttgtta-actttgtgtatgattgcaccaaaatatgacattgaa-aataaacactcaaaaaaattca-cttgtttatttgctttcttgtttagGTTAAATTGTGGTGTGACTGCCCTTTCTGGCCTGATGATGGAATGTGTCGGCTTAGGGATTGTAGTGTCTGTGAGTGCCCAGAGAATGAGTTTCCTGAGC
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G108115_T01 (Zea mays), 3'ss of exon 2
ttgtttattctgttat-acttcaattgatattgtgttttcgctta--tgcttgactgacctatatcccattttctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
| ||| ||| ||| | | | | || | | | || | | | | || | | | ||||| ||| | ||| | ||| ||| |||||||||||||||||||| |||| |||||||| |||||| | | | ||||| ||||||||||| || || || |||||||||||||||
--ctatatgtgaatatgactaccaaaatgctcatattaaaaataaaatttttaagcaatggttcatctgttctaagtcgtgtgttgttccttgtctttta-agGTTAAATTGTGGTGTGACTGCCCTTTTTGGCCCGATGATGGAATGTGCAAGCTTAGAGATTGTAGTGTTTGTGAGTGTCCGGAGAATGAGTTCCCTGAAC
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G521844_T01 (Zea mays), 3'ss of exon 2
-ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccattttctgaagcctgttgatccatttctatggta-gGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
|| | | ||||| ||| | | | | || | || | | | || | | | || || ||| | ||| | ||| || ||| |||||||||||||||||||| |||| |||||||| |||||| | | | ||||| ||||||||||| ||| | || ||||||||||| |||
tgtgatgccaccaaaatactcacattaaaaataaaaaatttctgcag--tggccagtggctcatctgttctaagtcacgtgctgttccttgtcttttgtaagGTTAAATTGTGGTGTGACTGCCCTTTTTGGCCCGATGATGGAATGTGCAAGCTTAGAGATTGTAGTGTTTGTGAGTGCTCAGAGAATGAGTTCCCCGAAC
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G10830.2 (Glycine max), 3'ss of exon 2
-----ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccattttctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
| ||| | ||||| | | |||| ||| | | ||| ||||| || || ||||| || | | | | | | |||| ||||| |||||||||||||||||||||| |||||||| ||||||| |||||||| || ||||| ||||||||||| |||| |||||||| |||
tcatgcattatatgtttgaatactgataactaaattgcatttcttttcacttttg-ttgaccctcatga-atcttctgtg--ctaaaggtgaaacttttta-tagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGCCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAGCGAGTTCCCCGAAT
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 2
-ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccatttt--ctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
|||| | ||| | ||| ||| ||||| ||| || ||||| | || | | | | || ||| || || | | | | |||| ||||| |||||||||||||||||||||| |||||||| ||||| | |||||||| || ||||| ||||||||||| |||||||| ||||| |||
tatgttggaatactgataactaaat--gcatttctttttcacttttg-ttgaccctctcatgtttcttctgtgctaaagactagtgggtgaaattttttatagGTGAAGTTATGGTGTGACTGCCCTTTCTGGCCTGATGATGGCATGTGTCGGTTGCGGGACTGTAGTGTGTGTGAATGCCCTGAAAATGAATTCCCCGAAT
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G38960.3 (Arabidopsis thaliana), 3'ss of exon 2
ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccattttctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
||| | ||| | | || | | | | || | | | || ||| | | || | ||| |||| ||| |||||||||| ||||| || |||| |||||||| ||||||| || | || ||||||||||||||||| || |||| ||||||||||||
-----------gttg-gttcatatttcttctttgatcatgaaagtatctagaggatttggaggt-gtgttgtgataggtttgaatgcgttt----aatagGTTAAACTGTGGTGTGATTGCCCGTTTTGGCCTGATGATGGCATGTGCCGGTTAAGAGACTGCAGTGTTTGTGAATGTCCTGAAAGCGAGTTCCCTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttgactgacctatatcccattttctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
tccatttct CT-rich tract
atttctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtttattctgttatacttcaattgatattgtgttttcgcttatgcttgactgacctatatcccattttctgaagcctgttgatccatttctatggtagGCTAAGTTGTGGTGTGACTGCCCTTTCTGGCTAGATGATGGTATGTGCCACTTGCGGGATTGCAGTGTTTGTGAATGCCCCGAAAATGAGTTCCCTGAAA
- - - - - - - - - - - - - - - - - - - - cttatgc
- - - - - - - - - - - - - - - - - - - - - - - - tgactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgttg