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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtggggagtgagtggtgagggggtggggatggtggtggtaggatgtggaggtgggaggtgattgagaacagatgtggcggtgcgtggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACGAGGGGTACGCGCTGCCGCACGCGATTCTGCGACTGGACCTGGCGGGGCG

Basic information

species Physcomitrella patens
transcript PP1S372_38V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S372_48V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G053299_T01 (Zea mays), 3'ss of exon 3
--------------------gtgagtggggagtgagtggtgagggggtggggatggtggtggtaggatgtggaggtgggaggtgattgagaacagatgtggcggtgcgtggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACGAGGGGTACGCGCTGCCGCACGCGATTCTGCGACTGGACCTGGCGGGGCG
                     | | |   |  |   | |      |     |||  | ||  | || ||    |  |  |     |  |  ||  ||||  |||| |   |  ||||||||| ||||| ||||| || || || ||||| ||||| ||||||||||||||||| |||||||| || || || |||||  | ||||| || || || ||
gcacgtgtccactttcacctcttattaaagtttttctaggacaacgtctctgattctcgtcattgg-tgatctgacgacac-cattctactacctatgtctcggtactctgtgtgcagGTATTGTGCTCGATTCTGGTGATGGTGTGACCCACACCGTGCCAATCTACGAGGGATACGCGCTCCCTCATGCCATTCTTAGGCTGGATCTTGCTGGCCG

upper sequence: PP1S372_48V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT3G18780.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagtggggagtgagtggtgagggggtggggatggtggtggtaggatgtggaggtgggaggtgattgagaacagatgtggcggtgcgtggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACGAGGGGTACGCGCTGCCGCACGCGATTCTGCGACTGGACCTGGCGGGGCG
               ||    |     | ||  |  || |  ||     ||    |     |  | ||||  | |||       | | | |||  ||||||| ||||||||||| || || || ||| | ||||| ||||||||||||||||| | | | || || || || || || || || ||||| || || ||
---------------gttagtacattttaggctttttgtttatactcattgatcattatttg-aactgagctctgatt--atcttccattgaa--cagGTATTGTGCTGGATTCTGGTGATGGTGTGTCTCACACTGTGCCAATCTACGAGGGTTTCTCTCTTCCTCATGCCATCCTCCGTCTTGACCTTGCTGGACG

upper sequence: PP1S372_48V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtggggagtgagtggtgagggggtggggatggtggtggtaggatgtggaggtgggaggtgattgagaacagatgtggcggtgcgtggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACGAGGGGTACGCGCTGCCGCACGCGATTCTGCGACTGGACCTGGCGGGGCG
    ||  |   | |    | |        |  ||   ||  ||  || |        |   | | | | |   | | |     ||         ||||||| ||||| ||||| || || || ||| | ||||| |||||||||||||||||||| || || || || || || || || || || || ||||| ||
----gttagttcttaactctaaacatccaagtctga--gttatattatcttcttacttgtatttacttaaagtcgttctctttttgta------acagGTATTGTGCTCGATTCTGGTGATGGTGTGTCTCACACTGTGCCAATCTACGAGGGGTATGCTCTTCCTCATGCTATCCTTCGTCTTGATCTTGCGGGTCG

upper sequence: PP1S372_48V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EDO98923 (Chlamydomonas reinhardtii), 3'ss of exon 5
--------------------------------------gtgagtggggagtg--agtggtgagggggtggggatggtggtggtaggatgtggaggtgggaggtgattgagaacagatgtggcggtgcgtggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACGAGGGGTACGCGCTGCCGCACGCGATTCTGCGACTGGACCTGGCGGGGCG
                                         |      | ||  | ||    |               |       |    |  ||   |||   |   |  |   |  | | | |   | |   | |||||||||||||| || || ||||||||||||||||||||||| ||||||||||| |||||||                                     
cgcgtgacatgtgcgtgaaggccctggcccctcccctccccatcaaccactgccattgactcgcaccctcactcccgcgcctccccaccccgccgtcc-agGCCGTGCTGTCCCTGTACGCCAGCGGCCGCACCACCGGTATCGTGCTGGACTCTGGCGACGGCGTGACGCACACGGTGCCCATCTACGAGGGCTACGCGC-------------------------------------

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|208377765|gb|DC940877.1|DC940877
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
EST: gi|100409313|gb|BY991949.1|BY991949
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
EST: gi|100379823|gb|BY949962.1|BY949962
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
EST: gi|162156866|gb|FC333020.1|FC333020
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTTCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
EST: gi|100417941|gb|BY993260.1|BY993260
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
EST: gi|100360875|gb|BY965946.1|BY965946
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
EST: gi|67727008|gb|BJ977267.1|BJ977267
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTACTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
EST: gi|100380171|gb|BY968883.1|BY968883
EST:     CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGG                         GTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG
genomic: CGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGgtgagtgggg ... tggaatgcagGTATCGTGCTGGATTCGGGGGACGGCGTGACGCACACGGTGCCAATCTACG