Sequence
atgc intronic sequence ATGC exonic sequence...taaggcctaaagatacaagggattccatgcaaacaaacggaaatgggaaatttgactggattttttttattttttatttatttatttactgattttacagGAATCTTCATCTTTGAGAAATATACCAGTAGTGATCATGTCATCTGAGAATGTGCCTTCAAGGATCACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g72330.1 (Oryza sativa), 3'ss of exon 3
------taaggcctaaagatacaagggattccatgc---aaacaaacggaaat----gggaaatttg--actggattttttttattttttatttatttatttactgatttt------acagGAATCTTCATCTTTGAGAAATATACCAGTAGTGATCATGTCATCTGAGAATGTGCCTTCAAGGATCACCAG
| | | ||| | | | || | | || | |||| || |||| ||||| | || ||| || ||| | | ||||| ||||| ||| || || |||| | |||||||| ||||||||||| ||||||||||||||| ||||||||| |||
gtaagtttttgtttgcagagaattgaattcttatcctctgagcattcataaatcttgggtccttttgttgctggaagtggagtaaaatttgttccttttgctgttcattttgggggtacagGGATCATCTTCATTGAAGGACATACCAGTTGTGATCATGTCTTCTGAGAATGTGCCTGCAAGGATCAACAG
upper sequence: Vv08s0007g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G28570.1 (Glycine max), 3'ss of exon 3
taaggcctaaagatacaagggattccatgcaaacaaacggaaatgggaaatttgactggatttt--ttttattttttatttatttatttactgattttacagGAATCTTCATCTTTGAGAAATATACCAGTAGTGATCATGTCATCTGAGAATGTGCCTTCAAGGATCACCAG
| | | || || | | || ||| || | | || || | ||| || |||| | | | || || ||||||||||||||||||||||| |||||||| ||||| ||||||||||| ||||||||||||||||| | |||
-atcgtttgaaaatctatgaaatattatgttctcacttgttccacctggaaccaacaggctcaaaaacttaattagtattctctctgatgtt-atatttcagGAATCTTCATCTTTGAGAAACATACCAGTGGTGATTATGTCATCTGAAAATGTGCCTTCAAGGATTAACAG
upper sequence: Vv08s0007g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G31320.2 (Glycine max), 3'ss of exon 3
taaggcctaaagatacaaggga-ttccatgcaaacaaacggaaatgggaaatttgactgg--attttttttattttttatttatttatttactgattttacagGAATCTTCATCTTTGAGAAATATACCAGTAGTGATCATGTCATCTGAGAATGTGCCTTCAAGGATCACCAG
| | | || | || | || ||| || | || | | || | | || || | | | | | |||| || ||||||||||||||||||||||| ||||| || ||||| ||||||||||| ||||||||||||||||| | |||
--tcgtttgagaatcgatggaaattatgtgctcactt-cacttattccatctggaaccaacaggctcaaaaacttaatagtattctctctgatgatatttcagGAATCTTCATCTTTGAGAAACATACCGGTGGTGATTATGTCATCTGAAAATGTGCCTTCAAGGATTAACAG
upper sequence: Vv08s0007g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G57040.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------taaggcctaaagatacaagggattccatgcaaacaaacggaaatgggaaatttgac---------tggattttttttatttttt-----atttatttatttactgattttacagGAATCTTCATCTTTGAGAAATATACCAGTAGTGATCATGTCATCTGAGAATGTGCCTTCAAGGATCACCAG
| | | | | | | | || || | | | || | |||||| | | | |||| ||| | ||| || || ||||| |||||||| ||| |||| ||| ||||||||||||| |||||||| || ||||| || ||| |||| |||| |||
gtacttttttttcctaatttaagaggaaagttttcatattttcagtcaagaaagtgagagaatgtcaataggagatgagattatatgctatttgatgtgtataaataaaatcttttgattaatctgggaattatcttgttctacaattttgcagGAATCATCAGCTTTTAGAGATATACCAGTAGTTATCATGTCCTCAGAGAACGTTCCTGCAAGAATCAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaaatttgactggattttttttattttttatttatttatttactgattttacagGAATCTTCATCTTTGAGAAATATACCAGTAGTGATCATGTCATCTGAGAATGTGCCTTCAAGGATCACCAG
tactgat putative branch site (score: 2)
attttttttatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaggcctaaagatacaagggattccatgcaaacaaacggaaatgggaaatttgactggattttttttattttttatttatttatttactgattttacagGAATCTTCATCTTTGAGAAATATACCAGTAGTGATCATGTCATCTGAGAATGTGCCTTCAAGGATCACCAG
taaggcc
- - - - - -gatacaa
- - - - - - - - - - - -tccatgc
- - - - - - - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - - - - - - ggaaatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - tgactgg