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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGCGCCAGGCTCAGCTTTCCGGCACCTCCCTTGTCTGCTCGTCTAGCCCTCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaatgtccacagcttcctcattcccgagagagcttttctttaatttgggttttggttcattcttcggaagtgtgattatgttgatatgtgcgatggaggtagtcgccacatgtttgtcgtgacacggggtttcgggaaccgggaatgtgtcag

Basic information

species Physcomitrella patens
transcript PP1S77_21V6.1
intron # 1
splice site 5'
intron type U2

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|67712687|gb|BJ966136.1|BJ966136
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|67724400|gb|BJ974659.1|BJ974659
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162154562|gb|FC330772.1|FC330772
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162200015|gb|FC376282.1|FC376282
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|67568988|gb|BJ941812.1|BJ941812
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162274458|gb|FC450693.1|FC450693
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162253383|gb|FC429809.1|FC429809
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162253382|gb|FC429808.1|FC429808
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162216591|gb|FC392696.1|FC392696
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|18341890|gb|BJ173925.1|BJ173925
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|37820961|gb|BJ579027.1|BJ579027
EST:     CTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: CTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162216590|gb|FC392695.1|FC392695
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|100430525|gb|BY959913.1|BY959913
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|67569250|gb|BJ942074.1|BJ942074
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162236183|gb|FC411978.1|FC411978
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|67692205|gb|BJ952438.1|BJ952438
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|162154561|gb|FC330771.1|FC330771
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
EST: gi|67692506|gb|BJ952739.1|BJ952739
EST:     TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGA                         GTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT
genomic: TCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaat ... aatgtgtcagGTCGGCGGTGCGATTTGACAGGGAAGAAGGCTAACAATGGATACAAGGTCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGCGCCAGGCTCAGCTTTCCGGCACCTCCCTTGTCTGCTCGTCTAGCCCTCAGCCCTCTGTCTCCTTTGCCAGCCCTTTGCTGATGCAACCCCGTGCGAgtacgttaatgtccacagcttcctcattcccgagagagcttttctttaatttgggttttggttcattcttcggaagtgtgattatgttgatatgtgcgatggaggtagtcgccacatgtttgtcgtgacacggggtttcgggaaccgggaatgtgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT