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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatttctactggtttggttcgatagtgtaatggtaatgtctagttctcttcctaagcagcgatgatgtcgcatttcatgtcgcttttgcttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTATTTCGATGAGATAGATCCTATCAGCATAGACGTTCTACTCGTGACGCA

Basic information

species Physcomitrella patens
transcript PP1S77_275V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S77_275V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT1G61010.1 (Arabidopsis thaliana), 3'ss of exon 1
--taatttctactggtttggttcgatagtgtaatggtaatgtctagttctcttcctaagcagcgatgatgtcgcatttcatgtcgcttttgcttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTATTTCGATGAGATAGATCCTATCAGCATAGACGTTCTACTCGTGACGCA
   |  |||| | | |||| |   ||   | ||  ||  |   |  || | ||  |  |    |    | |   | || || | | || || |   ||||||||||||||||| ||||||||||  ||||| || ||||| ||| | || || ||||||||||| ||||||     ||| || || ||  |  | || ||
gtcagcttct-ccgttttgttctaatcaagcaaatgtgtt--ttgattttgttgttggggcatg----tcttatagttgattttggttgtgtt---gtgcagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA

upper sequence: PP1S77_275V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ04498 (Selaginella moellendorffii), 3'ss of exon 1
taatttctactggtttggttcgatagtgtaatggtaatgtctagttctcttcctaagcagcgatgatgtcgcatttcatgtcgcttttgcttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTATTTCGATGAGATAGATCCTATCAGCATAGACGTTCTACTCGTGACGCA
                         ||| | |||  || || || | |||| ||    ||| | ||  |    |   ||||   |  |  | |||  ||||| || |||||||| ||||| |||||| |||||||||| ||| | || |||||||||||||| |||||    |  || ||||| ||  | || || ||
-------------------------gtg-agtgg--atttcgagatttctttctttcgagcaaggaaat---gtgaaatgtgagtgct-ttcctgcccagTTCGACTGTGGAATCCATCCCGGCTACACTGGAATGGCCGCGTTGCCGTATTTCGATGAGATTGATCCGTCGACAATCGACGTGCTGTTAGTAACTCA

upper sequence: PP1S77_275V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ12712 (Selaginella moellendorffii), 3'ss of exon 3
taatttctactggtttggttcgatagtgtaatggtaatgtctagttctcttcctaagcagcgatgatgtcgcatttcatgtcgcttttgcttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTATTTCGATGAGATAGATCCTATCAGCATAGACGTTCTACTCGTGACGCA
                         ||| | |||  || || || | |||| ||    ||| | ||  |    |   ||||   |  |    |||  ||||| || |||||||| ||||| || ||| |||||||||| ||| | || |||||||||||||| |||||    |  || ||||| ||  | || || ||
-------------------------gtg-agtgg--atttcgagatttctttctttcgagcaaggaaat---gtgaaatgtgagtgct-tacctgcccagTTCGACTGTGGAATCCATCCCGGGTACACTGGAATGGCCGCGTTGCCGTATTTCGATGAGATTGATCCGTCGACAATCGACGTGCTGTTAGTAACTCA

upper sequence: PP1S77_275V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ13866 (Selaginella moellendorffii), 3'ss of exon 1
taatttctactggtttggttcgatagtgtaatggtaatgtctagttctcttcctaagcagcgatgatgtcgcatttcatgtcgcttttgcttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTATTTCGATGAGATAGATCCTATCAGCATAGACGTTCTACTCGTGACGCA
                         ||| | |||  || || || | |||| ||    ||| | ||  |    |   ||||   |  |  | |||  ||||| || |||||||| ||||| || ||| |||||||||| ||| | || |||||||||||||| |||||    |  || ||||| ||  | || || ||
-------------------------gtg-agtgg--atttcgagatttctttctttcgagcaaggaaat---gtgaaatgtgagtgct-ttcctgcccagTTCGACTGTGGAATCCATCCCGGGTACACTGGAATGGCCGCGTTGCCGTATTTCGATGAGATTGATCCGTCGACAATCGACGTGCTGTTAGTAACTCA

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|18359404|gb|BJ191465.1|BJ191465
EST:     AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATG                         TTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT
genomic: AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATGgtgtgtacca ... ttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT
EST: gi|18359593|gb|BJ191654.1|BJ191654
EST:     AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATG                         TTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT
genomic: AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATGgtgtgtacca ... ttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT
EST: gi|18351975|gb|BJ184027.1|BJ184027
EST:     AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATG                         TTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT
genomic: AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATGgtgtgtacca ... ttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT
EST: gi|18345408|gb|BJ177451.1|BJ177451
EST:     AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATG                         TTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT
genomic: AGGTTGGACGTTCGTGTGTCTACATGACCTACAAAGGCAAAACTGTGATGgtgtgtacca ... ttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcttcctaagcagcgatgatgtcgcatttcatgtcgcttttgcttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTATTTCGATGAGATAGATCCTATCAGCATAGACGTTCTACTCGTGACGCA
                                   tcgcttttgcttct  CT-rich tract
                           atttcat  TA-rich tract