Sequence
atgc intronic sequence ATGC exonic sequencegtctataaaactatttcttcatgtaattgtccttaaattttattttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 7
gtctataaaactatttcttcatgtaattgtccttaaattttattttaccttgtggaactttactattgtttgaatctaaaagatcttctg-ctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
|| ||| | | || | | || ||||| || | | || || |||| || | | ||| || | |||||||||| ||| |||| || || || || |||||||| ||||| || || || || || ||||| ||||| ||||| |||||||| ||||||||||| |
----------------------------gtgcttg---ctcagtt--cttaatgattttttacctccaga-gagttttaactttcatctgactattatatgcctttttttttgtagGGATGTGACTGTTTAGGTTTCATAAAGTATTTTGATGCACACTTCACGAATTTTACGGGTGGTGTGGAAACAATTGAGAATTGTGTATGTTTGCATGAGG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 6
gtctataaaactatttcttcatgtaattgtccttaaattttattttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
|| || || | || | | | | ||| || || || ||| || | ||||| | | | |||| | || || || |||||||| ||||| | || | || ||||| |||||||| || || |||||||||||||| ||||| || || ||||| || ||||||||||||||||| |
------------gttattttattcagttcttgatgtgtatactttgacgtt-caaaatttttctttgatttgactat----gctctttaaccttt--------ttgtg----cagGGATGCGATTGCTTGGGCTACATAAAATATTTTGATGCACATTTCACAAACTTCACTGGTGGTGTGGAGACAATTGAGAACTGTGTTTGTTTGCATGAGG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 6
gtctataaaactatttcttcatgtaattgtccttaaattttat-tttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaatt-atgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
| || |||| | || || ||| ||| | | || || || | || | ||| | | || | | | | | || | |||||||||||||||| | || | ||||| || |||||||| ||||| ||||| |||||||| || || ||||| |||||||||||||| |||||||||||||
--------------gtattagaataatatttgttctcttgtatgcttatcatttgtcaccgtattctt-tctga--ttggattcctttttatctgaggttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 5
gtctataaaactatttcttcatgtaattgtccttaaattttat-tttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
|| | |||| || || || | | |||||| |||||| || |||| || || | | | || || | |||| | || | || ||||| ||||||||| | || | ||||||||||||||||| || || ||||| |||||||| || ||||| || |||||||||||||| |||||||||||||
gtttgagaaac-----ctatatttatccttttcaatgttttatatttaccaagttcctcttt----ctgattaagtttcaatgag-------tctaaagtcaacatttg-ttgcagGGGTGTGATTGTTTGGGCTACATCAAATACTTTGATGCTCATTTCACAAATTTCACTGGTGGAGTTGAGACAATTGAAAATTGTGTATGTTTGCATGAAG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S178_54V6.1 (Physcomitrella patens), 3'ss of exon 7
gtctataaaactatttcttcatgtaattgtccttaaattttattttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
| | | ||| | | | | | ||| | ||| ||| || || | || || || | ||||| ||| ||||||||||||||||| || | ||||| || ||||||||||| ||||| || ||| |||||| |||||||| || ||||| ||||| || |||||||||
------------agtcaactacacaatattttaaagactagaacagttgacgtgaagattttttatgcaatggatttgtt-gaggagttgattatcactgaaaagatg--tgcagGGATGTGATTGTCTGGGCCTGATCAAGTATTTTGATGCCCATTTTACCAATTTCCATGGAGGAGTTGAAACAATCGAAAACTGTGTCTGCATGCATGAAG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S9_129V6.1 (Physcomitrella patens), 3'ss of exon 7
gtctataaaactatttcttcatgtaattgtccttaaattttattttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgac-cacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
| | | ||| | | | | || || | || || | || | || | || ||| || || ||| | ||| || || | || ||||| || |||||||| || || || || ||||||||||| || ||||| |||||| |||||| ||||||||||| ||||| ||| |||| |||| ||||
---------atcagctgctcaactcacgggc---aacttgaacttcac--tatgcgagttga--gttctttcaaaggaacagacttgctgagttgtcattgcgtagagatgtgcagGGTTGCGATTGTCTTGGCTTAATTAAGTACTTTGATGCACATTTTACCAACTTCCATGGAGGAGTTGAAACGATAGAAAACTGTATTTGCATGCACGAAG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S363_39V6.1 (Physcomitrella patens), 3'ss of exon 5
gtctataaaactatttcttcatgtaattgtccttaaattttattttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
|| | | | | | || | |||| || | | | | ||| || || |||| | | | | || || | | ||| || ||||| ||||||||||| || | || ||||||||||||||||| ||||||||||| |||||| ||||||||||| ||||| ||||| || |||||||||
----ttagagcagaacactgaagcccttacctttaagtt--actagaacacgtgag---ttgaaatgaaatgaac----atgttgatttgattatcattcaaaaggtg--tgcagGGGTGTGATTGTCTTGGTCTGATTAAATACTTTGATGCCCATTTTACAAACTTTCATGGAGGAGTTGAAACGATCGAAAACTGTGTCTGCATGCATGAAGMapped 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|71862200|gb|DT011255.1|DT011255EST: TTGATGCTGGTGAAGATGGCCTGGGAAAAAATGCAAACTCTCTTAAAAAG GGATGTGATTGTCTAGGGTTTATCAAATACTTTGA
genomic: TTGATGCTGGTGAAGATGGCCTGGGAAAAAATGCAAACTCTCTTAAAAAGgtctataaaa ... atgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
atctaaa putative branch site (score: 3)
tttaaaatgaaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctataaaactatttcttcatgtaattgtccttaaattttattttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaattatgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG