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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTCGGTGGAGCACCATACGCAAGTGAAGGTAAAGAAACGTGGCTCGGATACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgtcagtttttgccttctctacgagctctacaatgaaccaattttggcatgtgaaatagcagtcgtacctatgttgtgcacatcatgatgaacgcgtgttg...

Basic information

species Physcomitrella patens
transcript PP1S1_203V6.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S1_203V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os02g50880.1 (Oryza sativa), 5'ss of exon 1
CATTCGGTGGAGCACCATACGCAAGTGAAGGTAAAGAAACGTGGCTCGGATACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgtcagtttttgccttctctac-gagctctacaatgaaccaattttggcatgtgaaatagcagtcgtacctatgttgtgcacatcatgatgaacgcgtgttg
|| || ||||||||| | || || || ||| | ||||| || ||||| || |||||||||||||||||||| || || ||||| || || |||||||| |||  | |||  |||||||| | |    || || ||  |     ||  ||  ||    |   || |||| |||    |||     | |||     |   | |
CACTCCGTGGAGCACTACACCCAGGTCAAGCTTAAGAAGCGCGGCTCCGACACCAAGTACCTGGCCACGGTCCTCGCCATTGGGACGGAGTGCGACATTGgtatgatttccccttctctgctgcaacctgcattgttctttccttctcaattgttgcaattgtagtacttatccaatgcttcctaagattgctcca-atag

upper sequence: PP1S1_203V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA05G01930.1 (Glycine max), 5'ss of exon 1
CATTCGGTGGAGCACCATACGCAAGTGAAGGTAAAGAAACGTGGCTCGGATACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgt--cagtttttgccttctctacgagctctacaatgaacc-aattttggcatg-tgaaatagcagtcgtacctatgttgtgcaca-tcatgatgaacgcgtgttg
|||||||| || ||| |||| || || ||| | |||||||||||||| |||||||||||| ||||||| || || || ||||| |||||||| ||||| |||  ||  | |  |||| ||    |  | |||  ||||   |||    | ||| |  | ||| ||   |    |     |  ||| | |   ||||   |||   
CATTCGGTAGAACACTATACACAGGTCAAGCTCAAGAAACGTGGCTCTGATACCAAGTACTTGGCCACTGTGCTCGCCATTGGAACCGAATGTGACATTGgtaacaactatctccttgtcattta--tttactttgaatttaatacaaggatgatagagtagtagaaatttagaatcattagacaataacagtgaataagtg---

upper sequence: PP1S1_203V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA17G09970.1 (Glycine max), 5'ss of exon 1
CATTCGGTGGAGCACCATACGCAAGTGAAGGTAAAGAAACGTGGCTCGGATACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgtcagtttttgccttctctacgagctctacaatgaaccaattttg-gcatgtgaaatagcagtcgtacctatgttgtg-cacatcatgatgaacgcgtgttg
||||| ||||| ||| | ||||| || ||| | ||||||||||| || |||||||||||| ||||||| || || || ||||| |||||||| || || ||| |       |   |||   |   | ||         |||||    ||     |||||  ||  ||   |||| |   || |  |  || |  | |  |  
CATTCCGTGGAACACTACACGCAGGTCAAGCTCAAGAAACGTGGTTCTGATACCAAGTACTTGGCCACTGTGCTCGCCATTGGAACCGAATGTGATATTGgtaacaaacaactaactccttgtcatttatttactttgaatttcatacaacgagaatagatgt-atagaaatgtagaatcataagacaataacggtgaata-

upper sequence: PP1S1_203V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ16952 (Selaginella moellendorffii), 5'ss of exon 1
CATTCGGTGGAGCACCATACGCAAGTGAAGGTAAAGAAACGTGGCTCGGATACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgtcagtttttgccttctctacgagctctacaatgaaccaattttggcatgt--gaaatagcagtcgtacctatgttgtgcacatcatgatgaacgcgtgttg
|| ||||||||||| || || || |||||| | ||||| || |||||||| ||||||||||||||||  |||||||| ||||| ||||| || ||||| ||| |||||      | | || |   | ||  |        | || || | |  |   || |||                                       
CACTCGGTGGAGCATCACACACAGGTGAAGATCAAGAAGCGAGGCTCGGACACCAAGTACCTGGCCAACGTTCTTGCCATTGGAACCGAGTGTGACATTGgtgagtttccaagct-tttatggtgtttatgacttctttttgtttgcttctttgttctatcag---------------------------------------

upper sequence: PP1S1_203V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ16073 (Selaginella moellendorffii), 5'ss of exon 1
CATTCGGTGGAGCACCATACGCAAGTGAAGGTAAAGAAACGTGGCTCGGATACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgtcagtttttgccttctctacgagctctacaa--tgaaccaattttggcatgtgaaatagcagtcgtacctatgttgtgcacatcatgatgaacgcgtgttg
|| ||||||||||| || || || |||||| | ||||| || |||||||| |||||||| |||||||  |||||||| ||||| ||||| || ||||| ||| |||||      | | || |   |  |  |  |       ||| |   | ||   || |||                                       
CACTCGGTGGAGCATCACACACAGGTGAAGATCAAGAAGCGAGGCTCGGACACCAAGTATCTGGCCAACGTTCTTGCCATTGGAACCGAGTGTGACATTGgtgagtttccaagct-tttatggtgttcatgacttctttttgtttggttctttgttctatcag---------------------------------------

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|162163954|gb|FC339864.1|FC339864
EST:     TACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAG                         CTATGCTGACAGTGAGCAATGACGAGTTTTGGGAGGATGTGACGCCTGTGG
genomic: TACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgtcagttttt ... gtgtgtacagCTATGCTGACAGTGAGCAATGACGAGTTTTGGGAGGATGTGACGCCTGTGG
EST: gi|162256228|gb|FC432284.1|FC432284
EST:     TACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAG                         CTATGCTGACAGTGAGCAATGACGAGTTTTGGGAGGATGTGACGCCTGTGG
genomic: TACCAAGTACCTGGCCACGGTTCTTGCGATTGGTACCGAATGCGACATAGgtcagttttt ... gtgtgtacagCTATGCTGACAGTGAGCAATGACGAGTTTTGGGAGGATGTGACGCCTGTGG