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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGACCTCGGGTGGTTTCCTCGTGGCAAGATGGCTGGACCTTTCCAGGAGGTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcacctgtcctctccattcaagttgttccactcttgtcttgcaaacgtgccaaaagtggagccgcatgcaaattctctaacagaaattacgtggcttgtaatag

Basic information

species Physcomitrella patens
transcript PP1S217_91V6.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S217_91V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GRMZM2G048277_T03 (Zea mays), 5'ss of exon 3
GAGACCTCGGGTGGTTTCCTCGTGGCAAGATGGCTGGACCTTTCCAGGAGGTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcacctgtcctctccattcaagttgttccact-cttgtcttgcaaacgtgccaaaagtggagccgcatgcaaattctctaacagaaat-tacgtggcttgtaatag
|||| || || ||||| || ||||||||||||||||| |||||||||||||| || ||||| || |||   ||     | || || || || ||||| ||||         || | |   || |    || ||||| |  | | ||    || ||  || |      | | || |    |    |  ||    |  |  |  | |||     
GAGATCTTGGTTGGTTCCCGCGTGGCAAGATGGCTGGTCCTTTCCAGGAGGTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgta--------tgcctttcacactgtttttcttccattgttcgcctattgaatgtatcatagcccatggcacaagtccttatcattgcactgctgcatttttcctgtg----

upper sequence: PP1S217_91V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: Vv17s0000g06430.t01 (Vitis vinifera), 5'ss of exon 4
GAGACCTCGGGTGGTTTCCTCGTGGCAAGATGGCTGGACCTTTCCAGGAGGTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgt--gagttcacct----gtcctctccattcaagttgttccactcttgtcttgcaaacgtgccaaaagtggagccgcatgcaaattct-ctaacagaaattacgtggcttgtaatag-----
| ||||| || |||||||| ||||||||||||||||| || || ||||| || |||||||  ||   |  ||| |     ||||| || || || || ||||  |  ||||  |    ||  | |  || |  ||||    | |  ||| |  | |   |   |  | |     | |  | |  |||  ||| |  |  |||  | |||| | ||       
GTGACCTTGGATGGTTTCCGCGTGGCAAGATGGCTGGTCCATTTCAGGATGTTGCCTTCAGCACAGTTATTGGAGCCACCAGTGCACCATTCAAATCAACgtatggattcaaatttgggtggtttttatgctcgttgagttaattctgtatctctagattcttagtacta----ctcgggtagcttcaactagctaaccttattttgcttttgatcatgcag
















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|162222778|gb|FC399032.1|FC399032
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|162239202|gb|FC416484.1|FC416484
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|18372342|gb|BJ203944.1|BJ203944
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|37821957|gb|BJ580023.1|BJ580023
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|67507466|gb|BJ940348.1|BJ940348
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|18325545|gb|BJ157542.1|BJ157542
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|162223114|gb|FC399693.1|FC399693
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|37850127|gb|BJ608135.1|BJ608135
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|37838928|gb|BJ596936.1|BJ596936
EST:     TGGCCTTCAATACCCCCTCNTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: TGGCCTTCAATA-CCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|162227771|gb|FC402387.1|FC402387
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|67578724|gb|BJ950891.1|BJ950891
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|18368840|gb|BJ200925.1|BJ200925
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|37852029|gb|BJ610037.1|BJ610037
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|162233101|gb|FC408508.1|FC408508
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|18333507|gb|BJ165522.1|BJ165522
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGNAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|18372510|gb|BJ204112.1|BJ204112
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|162233100|gb|FC408507.1|FC408507
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|162227772|gb|FC402388.1|FC402388
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|37834706|gb|BJ592718.1|BJ592718
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
EST: gi|18342813|gb|BJ174849.1|BJ174849
EST:     GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTAC                         GCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC
genomic: GTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcac ... cttgtaatagGCACGGGTATCACATCATCTTGGCCGAGGGAAGGAAAAACTAAATTCAAAC