Sequence
atgc intronic sequence ATGC exonic sequence...taatttagagtgaatttgatttctagtcagcaatatgtgtatcaaatatctgtttcagtttggttggactgtgcataacttttataaaaaaaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 2
-------------taatttagagtgaatttgatttctagtcagcaatatgtgtatcaaatatctgtttcagtttggttggactgtgcataacttttataaaaaaaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
|| | || | | |||| | | | | | | || ||| | ||| ||||| || | | || | | | || |||||||||||| ||||| | || |||||||||||||| ||||| ||||| || ||||| ||||||||||||||||| |||| ||| | | |||||||||
gtaaacctagttttatgctcgaaaggaacaaattttgatttgaatggacattt-ttaactattttttttagttttatttgtgtttgaaattggaatgtgtggttgtgttctagGCAAGAAATTCGAACTTCCACGAGCTCTATGACTTCGGTTCCTAAGCCGTTGAAGTTCCTTCGCCCTCATTATGGCACTCTTAAAACGTATTATGAAACT
upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 2
-------taatttagagt--gaatttgat---ttctagtcagcaatatgtgtatcaaatatctgtttcagtttggttggactgtgcataact----tttataaaaaaaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
|| ||| | ||| | | || | | | | | | ||| | || ||||| | | ||| || | ||| | || ||||||||||||| ||||| | || |||||||||||||| ||||| |||||||| ||||| ||||| || |||||||| |||| || | | |||||||||
gtaaacctagttttatgctcgaactgaacacattttgatttgaatgggaatttttggctatttattctagttttgaatgcatgtttgaaattggaatttgtggttgtgtgttgcagGCAAGAAATTCGAACTTCCACGAGCTCTATGACTTCGGTTCCTAAGCCATTGAAGTTCCTTCGTCCGCATTATGGCACTCTTAAGACCTATTATGAAACT
upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------taat-ttagagtgaatttgatttctag--tcagcaatatgtgtatcaaatatctgtttcagttt-----ggttggactgt-------gcataacttttataaaaaaaattta-----cagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
||| || | | ||| || || || ||| | ||| | | ||| || | | || | || ||||| | ||| || || | ||| ||| | |||||| | |||||||||| ||||| ||||||||||| || | |||||||| |||||||||||||| | ||| ||| |||| ||| || |
gtagtttttgtatctcttaaacccatccttgatttgattagatgcaaatattctgataattttctattggagtttctttaatgggcttatgacacttcttttgctgcttttagtgctttcactgttttcatagtctaatcttgatcgatctcttttggtatgtagGAAGGAAATTCGTGACTCAACAAGCTCCATGACATCAGTTCCAAAACCCCTCAAGTTTCTCCGCCCTCATTATGGAGTTCTTAAAGAATTTCATGCAAAA
upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G20580.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------------------------taatttagagtgaatttgatttctagtcagcaatatgtgtatcaaatatctgtttcagtttggttggactgtgcataacttttataaaaa--------aaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
| ||| | | | || || | | | | | | ||| | | ||||| ||| || ||| || | | ||| ||||| ||||| || || ||||||| || |||||||||||||| || ||| |||||||||| || || |||||||| |||| ||| | ||| ||||||||
gtaattcttgacttgatcagcttcgggttttcagattattgccactgaagcttgtacaacttataaagctttttttctttctctctgctcttggtgtacatgtttatgtttttaattagagttttatttggctttgtagGCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACTAAAGTTTCTGCGTCCCCATTATGGAACTCTTAAAGCGTTTCATGAAACAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71862597|gb|DT011652.1|DT011652EST: GTTCAGGACTCTGATCCTGGATTGCAGAAAATGGCTCTAGAGAGTATGAG GCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATT
genomic: GTTCAGGACTCTGATCCTGGATTGCAGAAAATGGCTCTAGAGAGTATGAGgtaactttaa ... aaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATT
EST:
gi|110730294|gb|EE107210.1|EE107210EST: GTTCAGGACTCTGATCCTGGATTGCAGAAAATGGCTCTAGAGAGTATGAG GCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATT
genomic: GTTCAGGACTCTGATCCTGGATTGCAGAAAATGGCTCTAGAGAGTATGAGgtaactttaa ... aaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatctgtttcagtttggttggactgtgcataacttttataaaaaaaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
gcataac putative branch site (score: 3)
tgtgcataacttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatttagagtgaatttgatttctagtcagcaatatgtgtatcaaatatctgtttcagtttggttggactgtgcataacttttataaaaaaaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
- - - - - - - - - - - - - tcagcaa
- - - - - - - - - - - - - - - - - - - - atcaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaaa