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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaacaagatcaatttaaaacacataaattggcacttttacacttcaaaacaaacttcctaaattgcacaactggatactgatgctcaccaggactgatgtactcaccgagttgcctttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGGTTGTTGAGCTGTGTTACTCCAATCAGTTGGCTTAACAAAATGATTCAGT

Basic information

species Physcomitrella patens
transcript PP1S5_195V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S5_195V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ29194 (Selaginella moellendorffii), 3'ss of exon 3
gtgaacaagatcaatttaaaacacataaattggcacttttacacttcaaaacaaacttcctaaattgcacaactggatactgatgctcaccaggactgatgtactcaccgagttgcctttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGGTTGTTGAGCTGTGTTACTCCAATCAGTTGGCTTAACAAAATGATTCAGT
                                                              |||  | ||  |    | || |  | ||    | |  ||  ||  | |||||     || ||||| |  | || ||||| || || |||||    || ||||| || || || ||| | |||||||| ||||| || ||||| ||||||||||||||||| || |
------------------------------------------------------------gtaatcactcatttatcgattgtt--ttactcccatt--tgagcttgc-gagtt-----tgctgcagGCTGCCATGTTTGTTCAGTCTCATGTTAAAGCTCATGCGGAACTAACCTGGCTTTTGAGCTGCGTTACACCTATCAGCTGGCTTAACAAAATGATCCAAT
















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|162159331|gb|FC335145.1|FC335145
EST:     CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAG                         TCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
genomic: CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAGgtgaacaaga ... tttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
EST: gi|18345421|gb|BJ177464.1|BJ177464
EST:     CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAG                         TCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
genomic: CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAGgtgaacaaga ... tttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
EST: gi|162232167|gb|FC407730.1|FC407730
EST:     CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAG                         TCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
genomic: CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAGgtgaacaaga ... tttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
EST: gi|100433415|gb|BY960569.1|BY960569
EST:     CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAG                         TCATCTATATNTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
genomic: CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAGgtgaacaaga ... tttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGG
EST: gi|18375325|gb|BJ206903.1|BJ206903
EST:     CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAG                         TCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTTG
genomic: CAAGAACTTCAGCAGCCTTGTACATTGCATGTGGCATTGATCCCACCAAGgtgaacaaga ... tttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTT-G


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggatactgatgctcaccaggactgatgtactcaccgagttgcctttgatgcagTCATCTATATTTGTCCAATCCCATGTATCGGCGCATGCTGAGCTGACTTGGTTGTTGAGCTGTGTTACTCCAATCAGTTGGCTTAACAAAATGATTCAGT
                                        ttgccttt  CT-rich tract