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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagcaaccccacaccaaaaaatgcatcttgtattgttcgttcaaaaaaatccatctgcatcttgtttccccaactattattaggccataatttta...

Basic information

species Oryza sativa
transcript LOC_Os05g32110.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G826714_T02 (Zea mays), 5'ss of exon 2
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagcaaccccacaccaaaaaatgcatct-tgtattgttcgttcaaaaaaatccatctgcatcttgtttccccaactattattaggccataatttta
                    ||||||||||| |||||||||||||||| |||||||| |||||||||||  | |||  ||||||||||||||| ||||| |||||||| |  ||||| |||| |  || || | | |  | | |   | |  |   ||   |  ||  | ||       | | |        | ||| |  
--------------------AGGCTTATGATTCGCTGGATCCAAATGGCAACATCACCATAAAATGGGATATCATGCAGTGGACTCCTGATGGATATGTCgtaagtagaatgcccaccccaacagctgtatatatttcatctccagcctagcaggccctggtctattctattgagtagtccagtcgacctgtacaatata-

upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G071970_T01 (Zea mays), 5'ss of exon 2
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagcaac-cccacaccaaaaaatgcatcttgtat-tgttcgttcaaaaaaatccatctgcatcttgtttccccaactattattaggccataatttta
                    |||| || ||| ||||||||||||| || |||||||| |||||||||||  | |||  |||||||||||| || ||||| |||||||| |   ||||| | || |  || ||||  |   | | |        |   ||   |  ||  | ||       | |   || | ||   |   ||
--------------------AGGCCTACGATTCGCTGGATCCAAACGGCAACATCACTATAAAATGGGATATCATGCAGTGGACTCCTGACGGATATGTCgtaagtagaattgcccactctaacagctgtatctctttcatctccagcttggtaggccctggtttattctattgaatagccca--gtttgacctgtacaata

upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G009154_T01 (Zea mays), 5'ss of exon 1
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagcaac-cccacaccaaaaaatgcatcttgtat-tgttcgttcaaaaaaatccatctgcatcttgtttccccaactattattaggccataatttta
       |    ||  ||||||||||| ||| |||||||||||||  | || ||||| |||||||||||  | |||| |||||||||||  || ||||| |||||||| |   ||||| | || |  || ||||  |   | | |        |   |    |  ||  | ||       | |   || | ||   |   ||
CGCCAAGTCAGATCGAGCAGAGGCTTACGATTCGCTGGATCCAAACAGCAATATCACTATAAAATGGGATATCATGTAGTGGACTCCTGGCGGATATGTCgtaagtagaattgcccactctaacagttgtatctctttcatctccagcttggtaggccttggtttattctattgaatagccca--gtttgacctgtacaata

upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA02G35400.1 (Glycine max), 5'ss of exon 1
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagcaaccccacaccaaaaaatgcatcttgtattgttcgttcaaaaa----aatccat--ctgcatcttgtttccccaactattattaggccataatttta-------
                    | ||||||||| | || |||||||||||||| ||||| || ||||||||  ||||    ||||| |||||||||||||||| ||||   |  |        ||    || | ||  | |        || ||    | |  ||   |  |  |  |    | || | || || |  | |  | |         
--------------------AAGCTTATGATCCACTTGATCCAAATGGAAATATCACAATCAAATGGGATATTATAAGCTGGACACCTGATGGCTATGTTGCAAgtc-tattctttttttcaatgtcgcctattaaaatcagaagcaaataatctgattttataattaaacatgatggttctaaatgtttttggctctttttctctctactag

upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA13G06660.1 (Glycine max), 5'ss of exon 2
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagcaaccccacaccaaaaaatgcatcttgtattgttcgttcaaaa---aaatccat--ctgcatcttgtttccccaactattattaggccataatttta
                       |||||||| | || |||||||||||||| ||||| || ||||||||  ||||    ||||| |||||||||||||||||||||  ||  |    || |        || |  |||     |   | ||    | |  ||   |  |  |  |    | || | || || |  | |  |    
-----------------------CTTATGATCCACTTGATCCAAATGGAAATATCACAATCAAATGGGATATTATAAGCTGGACACCTGATGGCTATGTTgtaagtc-cattcttttacaatgtcgcctat-taatatcagaagcaaataatctgattttataattaaacatgatggttctaaatgtttttggctctttttc---

upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: AT5G60920.1 (Arabidopsis thaliana), 5'ss of exon 2
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagca-accccacaccaaaaaatgcatcttgtattgttcgttcaaaaa-aatccatctgcatcttgtttccccaactattattaggccataatttta
                    | || ||||||||||| |||||| | || ||||| || || |||||||| ||||||   |||||||||||||||||||||||||||   | | ||   |  | |||||  ||   |  |||||            || |||||  |   |||||          |  |||            
--------------------AAGCATATGATGCGCTTGATCCAGAAGGCAACATTACAATGAAATGGGATGTTATGAGCTGGACTCCTGATGGCTATGTTgtaagttcaagaacctgaagtagaaaat--attaggccttgtttaccggtttttgattcatctaaac--tgtttgtttgttcgat-ctag------------

upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: AT3G29810.1 (Arabidopsis thaliana), 5'ss of exon 2
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaag-----tagcaaccccacaccaaaaaatgca--tcttgtattgttcgttcaaaaa----aatccatctgcatctt--gtttccccaactattattaggccat-aatttta-
                    | ||||||||||| || |||||| |||||||||| || |||||||||||  |||||   ||||||  |||||| ||||| |||||     ||  |||  |||   |||   ||    | |   | ||||   | | |||      | ||  ||  ||||  ||     | |||||||  |    ||    || | 
--------------------AAGCTTATGATGCACTTGATCCATATGGAAACATTACTATAAAATGGGATATTATGAGCTGGACTGGTGATGGTTATGTGgtaagaaatttaaaaacttcactttaaatgttgtggttatcacaatgttatataataaatcttgtttcaaatgtgtctttagtgattactactattaacaaattattggcttcag

upper sequence: LOC_Os05g32110.2 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 5'ss of exon 2
TTTTTGTTTTCCTCTTGCAGAGGCTTATGATGCGCTGGATCCAAATGGAAACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagcaaccc----cacaccaaaaaatgcatcttgtattgttcgttcaaaaaaatccatctgcatcttgtttccccaactat-tattaggccataatttta
                    | || |||||||| |||||||| |||||||| |||||||| ||||||||  |||||   |||||||| |||||||||||||||||||      |     | ||     ||   || |   |  | |||    | | |||   |   | | | |||    |   | | | ||| |      |    
--------------------AAGCCTATGATGCACTGGATCCCAATGGAAATATCACGATCAAATGGGATATTATGAGCTGGACTCCAGATGGCTATGTTgtaagtacttgttcattatatacttcctaactaatataacaggggtcgactcagataata-gtgatcttgtagttcatgcttgtgtatgttaagtttaggt----

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|58608092|gb|CK036125.1|CK036125
EST:     ACATCACGATAAAATGGGACGTTATGTGGGGGACTCCTGATGGCTATGTT                         GCTGTGGTCACGATGTTCAACTATCAACAATTCCGGCACATCCAGGCACCT
genomic: ACATCACGATAAAATGGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagca ... tcttgtgcagGCTGTGGTCACGATGTTCAACTATCAACAATTCCGGCACATCCAGGCACCT
EST: gi|58668642|gb|CK057328.1|CK057328
EST:     GGGACGTTATGTCGTGGACTCCTGAT-GCTATGTT                         GCTGTGGTCACGATGTTCAACTATCAACAATTCCGGCACATCCAGGCACCT
genomic: GGGACGTTATGTCGTGGACTCCTGATGGCTATGTTgtaagtagca ... tcttgtgcagGCTGTGGTCACGATGTTCAACTATCAACAATTCCGGCACATCCAGGCACCT