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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTTGCGCTTGCCTGTGAGGAGCATTATCACTTCGTGTTGGATGTCAGTGGGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccctggtggactcaatttgttcgtggaggagtggaggcgtgctggaaaaaaggaatccagcgattgtcctgttttcatcaccttgacttgaga...

Basic information

species Physcomitrella patens
transcript PP1S4_215V6.1
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|162235910|gb|FC411653.1|FC411653
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|208355802|gb|DC929983.1|DC929983
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|100443360|gb|BY963656.1|BY963656
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|18329278|gb|BJ161284.1|BJ161284
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|162238939|gb|FC417703.1|FC417703
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|100357608|gb|BY946481.1|BY946481
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|100427170|gb|BY959010.1|BY959010
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGGCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCTTCGCTATAGCCTCAGCCCCC
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCC-
EST: gi|162199675|gb|FC375914.1|FC375914
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|162264333|gb|FC440499.1|FC440499
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
EST: gi|67573078|gb|BJ945902.1|BJ945902
EST:     GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAG                         GTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG
genomic: GGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccc ... gttcattcagGTCAAGTTCGGCGACAGCAAGCCAGCATTCCTCGCTATAGCCTCAGCCCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTTGCGCTTGCCTGTGAGGAGCATTATCACTTCGTGTTGGATGTCAGTGGGAACCGTGAGTTGATGGAAGGGCATACCAAGGCTGGCCAGTTTGTTCAGgtgaatgccctggtggactcaatttgttcgtggaggagtggaggcgtgctggaaaaaaggaatccagcgattgtcctgttttcatcaccttgacttgaga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaggaa