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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagggcattgggacgtgcacgttaatatgcaattgagagcatttttgtcgttttgttctttgctgagcagtttaagttgctgtttgttgtgtttcttacgcgcccctcatttatcggttccgaaaacacatcaattgcttattgtagcgtttgtggctgttatgacctcagGGACACAGCTGGACAAGAGCGGTTCAGGAGTTTGATTCCTAGCTACATTCGGGACTCGTCCGTGGCAGTGGTTGTGTATGAT

Basic information

species Physcomitrella patens
transcript PP1S2_143V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S2_143V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: AT2G44610.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaagggcattgggacgtgcacgttaatatgcaattgagagcatttttgtcgttttgttctttgctgagcagtttaagttgctgtttgttgtgtttcttacgcgcccctcat-ttatcggttccgaaaacacatcaattgcttattgt-agcgtttgtggctgttatgacct--cagGGACACAGCTGGACAAGAGCGGTTCAGGAGTTTGATTCCTAGCTACATTCGGGACTCGTCCGTGGCAGTGGTTGTGTATGAT-------
                                                                                 |     | ||| |  |||| |      |  ||  |   |  |   |   || |||| ||  | ||  | | | |     || |  || |  |  |||||| |||||||| |||||||| ||||||||| | ||||| ||||| ||  |||| || ||||| || ||  |||||||||||       
---------------------------------------------------------------------------------gtaagatcttgagcctctttcaattttcgaatactgaagaataacattgcagatcattttttgatgattaacatcgagagccgaaatcatatgacagGGATACAGCTGGGCAAGAGCGATTCAGGAGTCTAATTCCGAGCTATATCAGGGATTCCTCCGTTGCTGTTATTGTGTATGATGTTGCAA

upper sequence: PP1S2_143V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ30542 (Selaginella moellendorffii), 3'ss of exon 2
gtaaagggcattgggacgtgcacgttaatatgcaattgagagcatttttgtcgttttgttctttgctgagcagtttaagttgctgtttgttgtgtttcttacgcgcccctcatttatcggttccgaaaacacatcaattgcttattgtagcgtttgtggctgttatgacctcagGGACACAGCTGGACAAGAGCGGTTCAGGAGTTTGATTCCTAGCTACATTCGGGACTCGTCCGTGGCAGTGGTTGTGTATGAT-------
                                                                                                                | |   |||||      || |   || | || ||     || | |   | ||| | ||  ||||| || ||||| || ||||| ||| ||||||||||||| |||||||| ||||| |||||||||||||| || ||||| |||       
---------------------------------------------------------------------------------------------------------------gtatgctggttctagcttca-aaggatggttttttacga-gtctat---ttttacgtcc--agGGATACTGCTGGCCAGGAGCGCTTCCGGAGTTTGATTCCCAGCTACATACGGGATTCGTCCGTGGCAGTCGTCGTGTACGATGTAGCGA
















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|100403885|gb|BY955150.1|BY955150
EST:     TCTCCAAGACAATGTATCTTGAAGAACGCACCGTTAGATTTACA-CTCTG                         GGACACAGCTGGACAAGAGCGGTTCAGGAGTTTGATTCCTAGCTAC
genomic: TCTCCAAGACAATGTATCTTGAAGACCGCACCGTTAGATT-ACAACTCTGgtaaagggca ... atgacctcagGGACACAGCTGGACAAGAGCGGTTCAGGAGTTTGATTCCTAGCTAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttccgaaaacacatcaattgcttattgtagcgtttgtggctgttatgacctcagGGACACAGCTGGACAAGAGCGGTTCAGGAGTTTGATTCCTAGCTACATTCGGGACTCGTCCGTGGCAGTGGTTGTGTATGAT
                      ttattgta  TA-rich tract