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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGGCTCAATAATTGCTCAGGGCTGTGAGGCCTCGTCTCTTCTCGCTGCCTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGgtatcgtactggtcctgtggccctcggtctcattcttttcttttcttttggttgcttgggctgttgagagagtgtggagtggtgaagcccagagattgtg...

Basic information

species Physcomitrella patens
transcript PP1S9_388V6.1
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|100373771|gb|BY967802.1|BY967802
EST:     CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGATGTATCAG                 
genomic: CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCC-------T--Ggtatcgtact ... ga
EST: gi|18326748|gb|BJ158747.1|BJ158747
EST:     CTNGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTG                         ATCCACCGNTCAAATCAATGACAGAACAAACCTCATGCTGCCGGGAAGGGC
genomic: CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGgtatcgtact ... gatgtatcagATCCACCGCTCAAATCAATGACAGAACAAACCTCATGCTGCCGGGAAGGGC
EST: gi|162179761|gb|FC356352.1|FC356352
EST:     GACACTGTACTTGTTCTTTGAGAGCAGGCGCCTG                         ATCCACCGCTCAAATCAATGACAGAACAAACCTCATGCTGCCGGGAAGGGC
genomic: GACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGgtatcgtact ... gatgtatcagATCCACCGCTCAAATCAATGACAGAACAAACCTCATGCTGCCGGGAAGGGC
EST: gi|18360241|gb|BJ192303.1|BJ192303
EST:     CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGATGTATCAG                 
genomic: CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCC-------T--Ggtatcgtact ... ga
EST: gi|100369151|gb|BY985041.1|BY985041
EST:     CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGATGTATCAG                 
genomic: CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCC-------T--Ggtatcgtact ... ga
EST: gi|18364529|gb|BJ196602.1|BJ196602
EST:     CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGATGTATCAG                 
genomic: CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCC-------T--Ggtatcgtact ... ga
EST: gi|100389249|gb|BY970999.1|BY970999
EST:     CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTG                         ATCCACCGCTCAAATCAATGACAGAACAAACCTCATGCTGCCGGGAAGGGC
genomic: CTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGgtatcgtact ... gatgtatcagATCCACCGCTCAAATCAATGACAGAACAAACCTCATGCTGCCGGGAAGGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGGCTCAATAATTGCTCAGGGCTGTGAGGCCTCGTCTCTTCTCGCTGCCTCGTCGACCATCACTGACACTGTACTTGTTCTTTGAGAGCAGGCGCCTGgtatcgtactggtcctgtggccctcggtctcattcttttcttttcttttggttgcttgggctgttgagagagtgtggagtggtgaagcccagagattgtg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG