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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGTTGAGATCATGGCACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatcacaactttgaagaatccatttgatttacctcagtcgagaccatgaggagatgcagtatatgtttccatctaattattttatatctgtacttggttatag

Basic information

species Physcomitrella patens
transcript PP1S448_20V6.3
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S448_20V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 11
GTTTGTTGAGATCATGGCACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgt-acatgatc-------acaactttgaagaatccatttgatttacctcagtcgagaccatgaggagatgcagtatatgtttccatctaattattttatatctgtacttgg--ttatag
 ||||||||||| ||||| || |||||||||||| | ||||||||||| |||||| | || || ||||| | ||| |        |    ||| ||  ||||||| | |     |     |      | ||   |  |  || |   |  ||  |||||||  |   ||  | || ||  ||  ||
ATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCGTTGTGTCTGGCATATGATTCAGgttaaatgttttctctttattctttttaaatatccattggttagttgtttaatgtctgtttaagcgcactcgttaaagtctaacaattaattatgattgttccattctgggcatttcag

upper sequence: PP1S448_20V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA08G14050.1 (Glycine max), 5'ss of exon 9
GTTTGTTGAGATCATGGCACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatcacaactttgaagaatccatttgatttacctcagtcgagaccatgaggagatgcagtatatgtttccatctaattattttatatctgtacttggttatag
|||||||||||| ||||| || |||||||||||||| |||||||| || || ||| | || || ||||| | | ||      |||    |||  || |   |||  | | |    || ||      ||||| |      |||   |  || |    |||||   |     ||    
GTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAGgttctttatttagtttttttcaaatatatcta--ttagtt-attgagaacaattcctgtatgca-tgagcacttcatacccataaaa--atatcaacatgacattg---

upper sequence: PP1S448_20V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA05G30850.1 (Glycine max), 5'ss of exon 9
GTTTGTTGAGATCATGGCACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatcacaactttgaagaatccatttgatttacctcagtcgagaccatgaggagatgcagtatatgtttccatctaattattttatatctgtacttggttatag---
|||||||||||| ||||| || |||||||||||||| |||||||| || || ||| | || || ||||| ||  ||    ||| |         |||||||||   ||        | || ||    ||      ||  || |||   |  | || ||| |   |      |||     
GTTTGTTGAGATAATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAGgttca--atggttactct-------ttatttgatttttttctaatatctctattagttattgagaacaattcttgcattaga--acttcataccc-cataaaaatatcagcg

upper sequence: PP1S448_20V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv14s0066g00310.t01 (Vitis vinifera), 5'ss of exon 9
GTTTGTTGAGATCATGGCACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatcacaactttgaagaat----ccatttgatttacctcagtcgagaccatgaggagatgcagtatatgtttccatctaattattttatatctgtacttggttatag
 |||||||||||||||||  | |||||||| ||||| ||||||||||| || ||| | || || |||||    |        |||  | | |    | |||     |    || |     | || | | ||| |     |  ||     |    || ||                     
CTTTGTTGAGATCATGGCTACTGTGTTTTCTCGAAATGCATGGCGTTGTGTTTGGCATATGATTCAGgtttggggcattcttttttcatactgtagctattgacacttatccatttattcctatcaagggatacctctgaaattgttgccatgctacttgcag-----------------

Mapped 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|162277818|gb|FC454281.1|FC454281
EST:     CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAG                         AATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
genomic: CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatc ... ttggttatagAATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
EST: gi|37826494|gb|BJ584506.1|BJ584506
EST:     CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAG                         AATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
genomic: CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatc ... ttggttatagAATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
EST: gi|162277817|gb|FC454280.1|FC454280
EST:     CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAG                         AATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
genomic: CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatc ... ttggttatagAATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
EST: gi|162177785|gb|FC354619.1|FC354619
EST:     CGTTGCGTCTGGTACATAATACAG                         AATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
genomic: CGTTGCGTCTGGTACATAATACAGgtacatgatc ... ttggttatagAATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
EST: gi|37822473|gb|BJ580539.1|BJ580539
EST:     CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAG                         AATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT
genomic: CACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAGgtacatgatc ... ttggttatagAATGACTTGGTACACGGTTGGGGTCTGGATTTCGCCATACGTCGCTGTGTT