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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcgaattcgttttgtagcactgcctctgatttatacgggtcaactaattccagcaataattttctagaaaaaacgatgcatgtaatcactgcttagtgtgtgcttatctttctttttccaattgctgcattggtcacaactctatacattctgctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGT

Basic information

species Physcomitrella patens
transcript PP1S168_70V6.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S168_70V6.3 (Physcomitrella patens), 3'ss of exon 16
lower sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 15
gtaagtttcgaattcgttt---tgtagcactgcctctgatttatacgggtc--aactaattccagcaataattttctagaaaaaacga-tgcatgtaatcac--tgcttagtgtgtgcttatctttctttttccaattgc-----tgcattggtcacaactctataca---ttctgctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGT
||||||   ||| |  ||    ||||       |||  | ||  ||   |   ||| |  ||||  | || |    |  | | | | | | ||   ||| |   |  |      |||  ||| |   ||    |||| ||     || | |  | | |||  | |  |   |    ||   ||||  |||||||| ||||| |  | |||||| |||| ||    | ||| |||||||||||||||||||| ||||||||    || |||||    || ||||| 
gtaagtg--gaactttttcaaatgtacaggaatctcaaacttgaactttttagaaccatgtcca--agtactcccgtgtatatatcaacttcagaaaattatgatagtactcccgtgtatatatcaattcaagcaatcgcaaacttgaactttttagaaccatgtctaaagtatctctttgtcagGTTGATCAAGGAGATCCGGTCTGATGTTTCTGAAGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCAGTTGATGGCTCTGTGTCCAAGCACCAGGGC

upper sequence: PP1S168_70V6.3 (Physcomitrella patens), 3'ss of exon 16
lower sequence: EFJ05270 (Selaginella moellendorffii), 3'ss of exon 14
gtaagtttcgaattcgttttgtagcactgcctctgatttatacgggtcaactaattccagcaataattttctagaaaaaacgatgcatgtaatcactgcttagtgtgtgcttatctttctttttccaattgctgcattggtcacaactctatacattctgctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGT
                                                                                                          ||     ||  | |||| || |  | ||    ||||    | ||  ||| | ||      ||| ||  |      |||  || | ||||| ||||   |  ||||||||||||||||||||||||| || ||||||||    |||||  |  | || || || 
----------------------------------------------------------------------------------------------------------gtaagcctcagttttttccccaggggtg----ggtctt--ccctg-acagtgtgagcatgcagAATAGTGTCAGGGATTCGATCTGATGTCGCTGGTATCAAAGAAGCAGACGAGTTTGAGTACAAAGATCCAGTTGATGGTTCCGTCGCAAGCCACCAAGGA

upper sequence: PP1S168_70V6.3 (Physcomitrella patens), 3'ss of exon 16
lower sequence: EFJ09195 (Selaginella moellendorffii), 3'ss of exon 14
gtaagtttcgaattcgttttgtagcactgcctctgatttatacgggtcaactaattccagcaataattttctagaaaaaacgatgcatgtaatcactgcttagtgtgtgcttatctttctttttccaattgctgcattggtcacaactctatacattctgctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGT
                                                                                                        ||  || |    || |||  |||      |  | ||||    | ||  ||| | ||      ||| ||  |   |  |||  || | ||||| ||||   |  ||||||||||||||||||||||||| || ||||||||    |||||  |  | || || || 
--------------------------------------------------------------------------------------------------------gtaagcctcaggttttttccccag-----gggtgggtctt--ccctg-acagtgtgagcatgcagAATAGTGTCGGGGATTCGATCTGATGTCGCTGGTATCAAAGAAGCAGACGAGTTTGAGTACAAAGATCCAGTTGATGGTTCCGTCGCAAGCCACCAAGGA

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|162267296|gb|FC442084.1|FC442084
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162193825|gb|FC371300.1|FC371300
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|208400781|gb|DC925061.1|DC925061
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162223683|gb|FC399456.1|FC399456
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162259443|gb|FC434954.1|FC434954
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162193558|gb|FC370461.1|FC370461
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162162824|gb|FC338086.1|FC338086
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162193826|gb|FC371301.1|FC371301
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162164263|gb|FC342078.1|FC342078
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162259444|gb|FC434955.1|FC434955
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162200465|gb|FC376126.1|FC376126
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37848361|gb|BJ606369.1|BJ606369
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162150597|gb|FC326453.1|FC326453
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162150598|gb|FC326454.1|FC326454
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37846517|gb|BJ604525.1|BJ604525
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37840790|gb|BJ598798.1|BJ598798
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162189353|gb|FC366511.1|FC366511
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162192557|gb|FC370604.1|FC370604
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37845541|gb|BJ603549.1|BJ603549
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37852890|gb|BJ610898.1|BJ610898
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162169785|gb|FC345322.1|FC345322
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162236018|gb|FC412177.1|FC412177
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37851537|gb|BJ609545.1|BJ609545
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162192556|gb|FC370603.1|FC370603
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162236017|gb|FC412176.1|FC412176
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37838353|gb|BJ596361.1|BJ596361
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37838320|gb|BJ596328.1|BJ596328
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37825076|gb|BJ583142.1|BJ583142
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|208368987|gb|DC955072.1|DC955072
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCCGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162181556|gb|FC358170.1|FC358170
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162200466|gb|FC376127.1|FC376127
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttctttttccaattgctgcattggtcacaactctatacattctgctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGT
                                         ttctgct  CT-rich tract
                                   tatacatt  TA-rich tract