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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGAAGAAGGCGTTGCCTGCTAATGCCAAGATTGCCAAAGATGCGAAGGAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccatttgatatggtttttcggtgtcatatgtcgcatgttgcccttgtcttactgtttctttacgtccgctaatgtggccgttggaccgtaataacg...

Basic information

species Physcomitrella patens
transcript PP1S25_89V6.1
intron # 2
splice site 5'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S25_89V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA10G33550.2 (Glycine max), 5'ss of exon 2
TCATGAAGAAGGCGTTGCCTGCTAATGCCAAGATTGCCAAAGATGCGAAGGAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgt-atccatttgatatggtttttcggtgtcatatgtcgcatgt----tgcccttgtcttactgtttctttacgtccgctaatgtg--gccgttggaccgtaataacg--------------------------------------------------------------------------
|||||||||||||  ||||| | |||| ||||||||| || ||||| || || ||| | ||||| || ||||| ||||||||||| ||||| || ||||||| |  || ||  ||     | |   | ||   |     || |    ||   ||   ||  |   ||   | ||    ||||||   || |  |     ||||                                                                              
TCATGAAGAAGGCTCTGCCTCCCAATGGCAAGATTGCGAAGGATGCAAAAGACACAATGCAAGAATGCGTTTCTGAATTCATCAGCTTCATTACCAGCGAgtgagtcagttattagcaactatacatatccagttatcgatatcaaatgttttttgttttttagctcaaaatgttttttaatgtaaagctgcagttttttaatttttattttttggggattgggggttctgagaattttttaattactgaattccacgcacgtggttattatgacttgcag

upper sequence: PP1S25_89V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT2G37060.3 (Arabidopsis thaliana), 5'ss of exon 2
TCATGAAGAAGGCGTTGCCTGCTAATGCCAAGATTGCCAAAGATGCGAAGGAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccatttgatatggtttttcggtgtcatatgtcgcatgttgcccttgtcttactgtttctttacgtccgctaatgtggccgttggaccgtaataacg--------
||||||| |  |   | ||||||||||  || || || |||||||| |||||||  || || || ||||| || ||||||||||||||| |||| |||||||||   |||  ||    ||||     |  ||||| |  | |||| |||| || | |||||     |      | ||  |  | |||     || |  |         
TCATGAAAAGAGGTCTTCCTGCTAATGGGAAAATCGCTAAAGATGCTAAGGAGATTGTGCAGGAATGTGTCTCTGAATTCATCAGTTTCGTCACCAGCGAgtatgtctttttta-accttttaacaatgctatgttgtgt-ttgctcttg-ctgaatgtttagaggc-----ttgataggaactttgagttttagtttcaagtcttaa

upper sequence: PP1S25_89V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv13s0019g03600.t01 (Vitis vinifera), 5'ss of exon 2
TCATGAAGAAGGCGTTGCCTGCTAATGCCAAGATTGCCAAAGATGCGAAGGAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccat-ttgatatggtttttcggtgtcatatgtcgcatgttgcccttgtcttactgtttctttacgtccgctaatgtggccgttggaccgtaataacg
||||||||||||||||||| |||||||  ||||| ||||| ||||||||||| || || |||||||| || ||||| ||||||||||||||||| ||||||||  |   |   | |   |||||  |  | | | |  | |       |||| ||   | || |||   |      |||    | ||      || |    
TCATGAAGAAGGCGTTGCCGGCTAATGGTAAGATCGCCAAGGATGCGAAGGACACTGTCCAAGAGTGCGTCTCCGAGTTCATCAGTTTCATCACCAGCGAgtacgcggatctctctctcttttcttttccttctatttc-tccgatgattgtgttttgggttatttgattaaaaggatgaaatcttttccttctatttctc

upper sequence: PP1S25_89V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv06s0004g03490.t01 (Vitis vinifera), 5'ss of exon 1
TCATGAAGAAGGCGTTGCCTGCTAATGCCAAGATTGCCAAAGATGCGAAGGAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccatttgatatggtttttcggtgtcatatgtcgcatgttgcccttgtcttactgtttctttacgtccgctaatgtggccgttggaccgtaataacg-----
|||||||||||||  | || || || | |||||| ||||| ||||||||||||||  | ||||| || |||||||| ||||||||||||||||| |||||||||      | | | ||||||   ||||   || || |  ||| |   || |    | |     |  |  |  || ||    |  | |    ||    |     
TCATGAAGAAGGCTCTTCCGGCCAACGGCAAGATCGCCAAGGATGCGAAGGAGACTCTCCAAGAATGCGTTTCCGAGTTCATCAGTTTCATCACCAGCGAgtatgag---ggttttgtttttaattgtcg-gtgccgtaatttggctccgtttggtcgctgagaaaattttggaaaagttaa-gaggaattaaaactttgaattt

upper sequence: PP1S25_89V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ15374 (Selaginella moellendorffii), 5'ss of exon 1
TCATGAAGAAGGCGTTGCCTGCTAATGCCAAGATTGCCAAAGATGCGAAGGAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccatttgatatggtttttcggtgtcatatgtcgcatgttgcccttgtcttactgtttctttacgtccgctaatgtggccgttggaccgtaataacg
| |||||||||||| |||| || ||||| ||||| ||||| ||||| |||||||| || ||||| || || || || |||||||| |||||||| ||||||||   ||| | |  | |  || |  || || |     || || |   |   ||   |                                          
TAATGAAGAAGGCGCTGCCGGCGAATGCAAAGATCGCCAAGGATGCCAAGGAGACGGTGCAAGAATGCGTCTCGGAGTTCATCAGCTTCATCACTAGCGAgtaagtatt-gcttcgatcctttgtggtgatgttaactatctt-cttctactttgtag------------------------------------------

upper sequence: PP1S25_89V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ24973 (Selaginella moellendorffii), 5'ss of exon 1
TCATGAAGAAGGCGTTGCCTGCTAATGCCAAGATTGCCAAAGATGCGAAGGAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccatt-tgatatggtttttcggtgtcatatgtcgcatgttgcccttgtcttactgtttctttacgtccgctaatgtggccgttggaccgtaataacg
| |||||||||||| |||| || ||||| ||||| ||||| ||||| |||||||| || ||||| || || || || |||||||| |||||||| ||||||||   |||     | | | ||||| |    | ||  | ||  |  | || |  |||| |                                         
TAATGAAGAAGGCGCTGCCGGCGAATGCAAAGATCGCCAAGGATGCCAAGGAGACGGTGCAAGAATGCGTCTCAGAGTTCATCAGCTTCATCACTAGCGAgtaagtattgctggaagttctttcgatcctttgtggtg-atactatc-ttcttctactttgcag-------------------------------------

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|208354191|gb|DC957411.1|DC957411
EST:     GAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGA                         AGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
genomic: GAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccattt ... cctattacagAGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
EST: gi|67697971|gb|BJ958204.1|BJ958204
EST:     GAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGA                         AGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
genomic: GAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccattt ... cctattacagAGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
EST: gi|162273471|gb|FC449616.1|FC449616
EST:     CAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGA                         AGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
genomic: CAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccattt ... cctattacagAGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
EST: gi|37828975|gb|BJ586987.1|BJ586987
EST:     TCATCAGTTTCATCACGAGCGA                         AGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
genomic: TCATCAGTTTCATCACGAGCGAgtatccattt ... cctattacagAGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
EST: gi|208387454|gb|DC949239.1|DC949239
EST:     GAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGA                         AGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA
genomic: GAGACAGTTCAAGAGTGTGTTTCCGAATTCATCAGTTTCATCACGAGCGAgtatccattt ... cctattacagAGCTAGCGACAAGTGTCAGCGGGAAAAGAGAAAGACGATCAATGGAGATGA