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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgtagagtgctctgagacgaggtggagtggctcttgaatgtcaaggatattaaaatcttgcatcacttgtatctaaccatgtgttgattgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTTTTGGTTGTGTTCGAGTCTCGCCCTGATGCCCTAGTTCAG

Basic information

species Physcomitrella patens
transcript PP1S22_40V6.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S22_40V6.1 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA03G12240.1 (Glycine max), 3'ss of exon 9
agtgtagagtgctctgagacgaggtggagtggctcttgaatgtcaaggatattaaaatcttgcatcacttgtatctaaccatgt-gttgattgcaaaat--agGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTTTTGGTTGTGTTCGAGTCTCGCCCTGATGCCCTAGTTCAG
  |||  | |||| |||    |    || |     |   |    |    |  ||   |    ||    ||||  |    |   | |||| |  |    |  || | |  ||   ||| |  |||||||||||||| |||||||| || ||  || ||||| | || |||||||| ||||||||||| ||||||
--tgtc-actgctttgaccaaaaaatgaataatgttattaaactatacgttctattgttcaacactctttgtgacagttctgattgttgttctctttgttcagCTAGTAGATAAACTCATCCTGGAGAAGACATCATGTCCTTTGGGTGTCCTTCTGGTTATATTTGAGTCTCGACCTGATGCCCTTGTTCAG

upper sequence: PP1S22_40V6.1 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA18G03830.1 (Glycine max), 3'ss of exon 9
agtgtagagtgctctgagacgaggtggagtggctcttgaatgtcaaggat--attaaaatcttgcatcacttgtatctaaccatgtgttgattgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTTTTGGTTGTGTTCGAGTCTCGCCCTGATGCCCTAGTTCAG
  || |||  ||| |   | ||  |    | |  ||  | | | ||   |  || | | |  |  |||  |  ||| |    |    |   ||   |  ||| |||| || || || | | ||||||| ||||| | | ||||||||||| ||||  |||| || ||||||||||||||||| ||||| |||
tttgaagaa-gcttttcaaggacatttgattgtactgaatttttaatttttaataatagttattgatctataatatttc-tgacagctacctttttatttagCTTGCAGAGGGGCTGATTTTGGAGAAAACATCATCTTCTTTAGGAGTTCTTTTAATTGTTTTTGAGTCTCGCCCTGATGCACTAGTACAG
















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|162184139|gb|FC358885.1|FC358885
EST:     CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAG                         GTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
genomic: CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAGgtaaggagaa ... tgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
EST: gi|162257460|gb|FC433321.1|FC433321
EST:     CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAG                         GTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
genomic: CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAGgtaaggagaa ... tgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
EST: gi|162276248|gb|FC452602.1|FC452602
EST:     CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAG                         GTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
genomic: CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAGgtaaggagaa ... tgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
EST: gi|162210539|gb|FC386835.1|FC386835
EST:     CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAG                         GTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
genomic: CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAGgtaaggagaa ... tgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
EST: gi|162167791|gb|FC344521.1|FC344521
EST:     CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAG                         GTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
genomic: CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAGgtaaggagaa ... tgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT
EST: gi|162153153|gb|FC329559.1|FC329559
EST:     CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAG                         GTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTANGAGTTGTT
genomic: CACTTGCAGACATGAAAGAGCCCATCGGGGAAGTGTTGAAGCGCACGGAGgtaaggagaa ... tgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggatattaaaatcttgcatcacttgtatctaaccatgtgttgattgcaaaatagGTTGCTGAAGGACTTACTCTGGAGAAGACATCTTGTCCTTTAGGAGTTGTTTTGGTTGTGTTCGAGTCTCGCCCTGATGCCCTAGTTCAG
     attaaaatctt  TA-rich tract