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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcgcgtacccatctcttgcatttgcgttggatcactttttcctaccctttggaattttggatttgtggcagattttgaggtattcaaggggagagtatagaagtaggcagtggagagaagaattgggttgttgtctgaggtggataattcggtagcatggtcgcaggtgttccagGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGAAGTGTTTGGGTTGTGTCTAGCGTGTGGGTCAGCAGATGGGACGATCTCGGTTTTATCGC

Basic information

species Physcomitrella patens
transcript PP1S100_118V6.1
intron # 1
splice site 3'
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|18362192|gb|BJ194261.1|BJ194261
EST:     AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAG                         GTGTTCCAGGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGA
genomic: AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAGgtagtcgcgt ... ggtgttccagG------AG---CACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGA
EST: gi|18374488|gb|BJ206066.1|BJ206066
EST:     AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAG                         GTGTTCCAGGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCT
genomic: AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAGgtagtcgcgt ... ggtgttccagG------AG---CACGAGTCATCGGTGAACAGCATCAGCTGGGCT
EST: gi|18346898|gb|BJ178943.1|BJ178943
EST:     AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAG                         GTGTTCCAGGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGAA
genomic: AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAGgtagtcgcgt ... ggtgttccagG------AG---CACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGAA
EST: gi|67508028|gb|BJ940901.1|BJ940901
EST:     GTGGCATCAGGCTCANGT
genomic: GTGGCATCAGGCTCA-G-
EST: gi|67508028|gb|BJ940901.1|BJ940901
EST:     GTGGCATCAGGCTCANGT
genomic: GTGGCATCAGGCTCA-G-
EST: gi|18329551|gb|BJ161557.1|BJ161557
EST:     AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAG                         GTGTTCCAGGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGAA
genomic: AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAGgtagtcgcgt ... ggtgttccagG------AG---CACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGAA
EST: gi|18364252|gb|BJ196325.1|BJ196325
EST:     AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAG                         GTGTTCCAGGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGA
genomic: AAGTCATCATCTGGAGAGAAGGGGCTGAGAATGAGTGGCATCAGGCTCAGgtagtcgcgt ... ggtgttccagG------AG---CACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgggttgttgtctgaggtggataattcggtagcatggtcgcaggtgttccagGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGAAGTGTTTGGGTTGTGTCTAGCGTGTGGGTCAGCAGATGGGACGATCTCGGTTTTATCGC
                       ataatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtcgcgtacccatctcttgcatttgcgttggatcactttttcctaccctttggaattttggatttgtggcagattttgaggtattcaaggggagagtatagaagtaggcagtggagagaagaattgggttgttgtctgaggtggataattcggtagcatggtcgcaggtgttccagGAGCACGAGTCATCGGTGAACAGCATCAGCTGGGCTCCTGAAGTGTTTGGGTTGTGTCTAGCGTGTGGGTCAGCAGATGGGACGATCTCGGTTTTATCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG