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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcgaagtagactgaatgcgtccaacattacctccgactctgtcaattgtctgtgatcaagctgtacaaagtttaaatcagggttttatgtcctttgcagATTCTTTTTGATACGCAGCAATGGTATAATTTGACTCAACAGTTCAAGCAGGAGTTTTGTAAGTTATATGGCATGACTCATGAGCCCCTGCTCAATATCC

Basic information

species Physcomitrella patens
transcript PP1S101_201V6.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S101_201V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA20G38660.1 (Glycine max), 3'ss of exon 4
ttcgaagtagactgaatgcgtccaacattacctccgact-ctgtcaattgtctg-tgatcaagctgtacaaagtttaaatcagggttttatg---tcctttgcagATTCTTTTTGATACGCAGCAATGGTATAATTTGACTCAACAGTTCAAGCAGGAGTTTTGTAAGTTATATGGCATGACTCATGAGCCCCTGCTCAATATCC
       |||| |   ||| |   |    | ||  | ||  | |  |    ||| |  |  |||  || || |||   |      ||||      |  ||| ||| || | |||||  |  |||||||| || || |     | || ||||| |||||||| || ||||||||||||||||||   |||||| ||||||||||| 
-----gctagaatttttgcttgatattgcatctttgtctatttttgagaagctgctatttcagcactaaaatgttgggaattttcttttgcataatattttacagGTTTTATTTGAAGCTAAGCAATGGGATTATCTAGTGGACCAATTCAAACAGGAGTTCTGCAAGTTATATGGCATGACTTTAGAGCCCTTGCTCAATATCT

upper sequence: PP1S101_201V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA10G43910.1 (Glycine max), 3'ss of exon 4
ttcgaagtagactgaatgcgtccaacattacctccgactctgtcaattgtctgtgatcaagctgtacaaagtttaaatcagggttttatg---tcctttgcagATTCTTTTTGATACGCAGCAATGGTATAATTTGACTCAACAGTTCAAGCAGGAGTTTTGTAAGTTATATGGCATGACTCATGAGCCCCTGCTCAATATCC
     || |   |   |   |    ||| |    | | | | | |      | |  |  |||  || || ||||  |      ||||      |  ||| ||| || | |||||  |  |||||||| || || |     | || ||||| |||||||| || ||||||||||||||||||   |||||| ||||||||||| 
--gctagaatttttgcttgatattgcatcattgtctatttt-ttaggaacttctattttagcactataatgtttggaattttcttttgcataatattttacagGTTTTATTTGAAGCTAAGCAATGGGATTATCTAGTGGACCAATTCAAACAGGAGTTCTGCAAGTTATATGGCATGACTTTAGAGCCCTTGCTCAATATCT

upper sequence: PP1S101_201V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: Vv13s0067g03560.t01 (Vitis vinifera), 3'ss of exon 4
-ttcgaagt--agactgaatgcgtccaacattacctccgactctgtcaattgtctgtgatcaagctgtacaaagt-ttaaatcagggttttat-gtcctttgcagATTCTTTTTGATACGCAGCAATGGTATAATTTGACTCAACAGTTCAAGCAGGAGTTTTGTAAGTTATATGGCATGACTCATGAGCCCCTGCTCAATATCC
 || ||  |   |  |   || || |   ||||  ||||  | | | |  | | | | | || | | | |||||  ||  |  |   | | || || | |||||| || | |||||  |  |||||||| || |  ||    | |||||||| ||||| || |||| ||||||||||||||||| ||||||  |||| |||||  
ctttgatttctggcttttctgggtgctttatta--tccg--tttatgagctatatttta-cacgttttgcaaagcatttgactaatttgtcattgtgcattgcagGTTTTATTTGAACCAAAGCAATGGGATTACCTGGTGGACCAGTTCAAACAGGAATTCTGTAGGTTATATGGCATGACTCTTGAGCCTTTGCTGAATATAT

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|100447104|gb|CJ971403.1|CJ971403
EST:     TCATGGCTACTCTAGCTTTCA-GAGTAATACGGACTGTGCTGCCTATAA-                         ATTCTTTT-GATACGCAGCAATGGTATA
genomic: TCATGGCTACTCTAGCTTTCAAGAGTAATACGGACTGTGCTGCCTATAAGgtgctccttt ... tcctttgcagATTCTTTTTGATACGCAGCAATGGTATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtctgtgatcaagctgtacaaagtttaaatcagggttttatgtcctttgcagATTCTTTTTGATACGCAGCAATGGTATAATTTGACTCAACAGTTCAAGCAGGAGTTTTGTAAGTTATATGGCATGACTCATGAGCCCCTGCTCAATATCC
                                           tgtccttt  CT-rich tract
                   tacaaagtttaaat  TA-rich tract