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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgagtgcgctgttagaatgattgtggaagtggttgtcttgtgtgtggatcactgtgaatctgatctttccttgcgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCTGGGCCTGTGGACCCAAGACCTTAAGAATCAAATCATTTACCACAATGGC

Basic information

species Physcomitrella patens
transcript PP1S195_46V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S195_46V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 13
gtaagtgagtgcgctgttagaatgattgtggaagtggttgtcttg--tgtgtggatcactgtgaatctgatct------------ttccttgcgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCTGGGCCTGTGGACCCAAGACCTTAAGAATCAAATCATTTACCACAATGGC
||  |  | |  |||  | |  | |  ||  ||  | |||| |||  |   || ||   ||  | |||| | |            |   || | ||| ||||||||||||| |||||||| |||||||| |||||| | || ||||||||  ||||  | ||| |||  |  || || ||  | ||  | ||  |  |||| 
gtctgcaaatctgctccttgt-taaacgttcaaccg-ttgttttggttacatgaatttttgccagtctgttttggtttacatgactagtttccttttggcagTGGCGAGTTTGTTGTAGTAAACAAGCATCTTCTCCATGATTTGACTGAGATGGGTATTTGGTCCCCTGTTCTGAAAAACAAGATTGTCTATGAAGATGGT
















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|162194734|gb|FC371581.1|FC371581
EST:     GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAG                         TGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
genomic: GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAGgtaagtgagt ... cgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
EST: gi|162192971|gb|FC369380.1|FC369380
EST:     GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAG                         TGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
genomic: GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAGgtaagtgagt ... cgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
EST: gi|162194733|gb|FC371580.1|FC371580
EST:     GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAG                         TGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
genomic: GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAGgtaagtgagt ... cgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
EST: gi|162192931|gb|FC369379.1|FC369379
EST:     GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAG                         TGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
genomic: GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAGgtaagtgagt ... cgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
EST: gi|162268642|gb|FC443696.1|FC443696
EST:     GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAG                         TGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
genomic: GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAGgtaagtgagt ... cgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
EST: gi|7286632|gb|AW599119.1|AW599119
EST:     GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAG                         TGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
genomic: GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAGgtaagtgagt ... cgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
EST: gi|162255798|gb|FC431458.1|FC431458
EST:     GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAG                         TGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT
genomic: GAATGCTTCGAGCCTTACACATCGAATATCTACAGCAGACGAGTACTGAGgtaagtgagt ... cgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggttgtcttgtgtgtggatcactgtgaatctgatctttccttgcgttttgcagTGGCGAGTTCGTTGTAGTCAACAAGCACCTTCTCAACGACTTGACTGATCTGGGCCTGTGGACCCAAGACCTTAAGAATCAAATCATTTACCACAATGGC
                             atctgat  putative branch site (score: 4)
                                   tctttccttgcgtttt  CT-rich tract