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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAACGCTGTCACATTTGGCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatttgagttgcgactaattgacttcatctttgcggttcgatgagtcttcctcattttgtacgctgtgtaacgtgaatcaatcttgttatgaaatccagttgctggtgcatgttcacatcggttaatcatttgactggttgtggtgtag

Basic information

species Physcomitrella patens
transcript PP1S86_156V6.2
intron # 2
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|18369527|gb|BJ201614.1|BJ201614
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|67702425|gb|BJ962658.1|BJ962658
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|67702738|gb|BJ962971.1|BJ962971
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|18369589|gb|BJ201677.1|BJ201677
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|18327439|gb|BJ159442.1|BJ159442
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACAGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|162165551|gb|FC340662.1|FC340662
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGC
EST: gi|67703574|gb|BJ963807.1|BJ963807
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCANCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|67703081|gb|BJ963314.1|BJ963314
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|100388525|gb|BY952127.1|BY952127
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
EST: gi|67576301|gb|BJ949125.1|BJ949125
EST:     GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTG                         GCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC
genomic: GCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatt ... tgtggtgtagGCTGCCAGCTCCGGCGCCACCAGGGCCGTCACCGAGGCCAAGATTAAGGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAACGCTGTCACATTTGGCAAGCGCTCCGATGACCTCGCCACCATTGTATCAGCTCAGTCCGCAGTGgtatgacatttgagttgcgactaattgacttcatctttgcggttcgatgagtcttcctcattttgtacgctgtgtaacgtgaatcaatcttgttatgaaatccagttgctggtgcatgttcacatcggttaatcatttgactggttgtggtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA