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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGCATTGAAGCTTGAGCATCGAAACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtacttaatacagtcatctttcatttgtaccagattattctctgctctttgagtttactgattattacctttcctactag

Basic information

species Oryza sativa
transcript LOC_Os07g07560.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G164265_T03 (Zea mays), 5'ss of exon 4
GTTGCATTGAAGCTTGAGCATCGAAACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtacttaatacagtcatctttcatttgtaccagattattctctgctctttgagtttactgattattacctttcctactag
|| ||||||||  | |||||||||||||||||||| |||||||||||  | || ||||||||||| |||||  |||||||   | || | | | |||||  ||| |         |||| | ||   |     || || ||  ||             
GTCGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAAgtatgttgctcatcctgccttcttttctttttgtggagactttcttt-ctgactattggtattgtttgctag------------

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 4
GTTGCATTGAAGCTTGAGCATCGAAACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtacttaatacagtcatctttcatttgtaccag--attattctctgctctttgagtttactgattattacctttcctactag
|||||||||||  | |||||||| ||||||||||| |||||||||||  |||| |||||||||||||||||  |||||||   | || | ||  |||||| |||||    |  | ||||   | ||   |      | || ||  ||             
GTTGCATTGAAATTCGAGCATCGTAACAGTAAAGGATGCAATTATGGCCCCCCATATGAGTGGCAAGTTTATAAgtatgttgctcatcctgttgtctttcctttgtcgtgggcactatttctttctgactattggcattgtttgctag------------

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G110085_T01 (Zea mays), 5'ss of exon 1
---------------------------GTTGCATTGAAGCTTGAGCATCGAAACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtacttaatacagtcatctttcatttgtaccag--attattctctgctctttgagtttactgattattacctttcctactag
                           |||||||||||  | |||||||| ||||||||||| |||||||||||  |||| |||||||||||||||||  |||||||   | || |  |  |||||| |||||    |  | ||||   | ||   |      | || ||  ||             
TTATGAATCAATCAATTACCTGAGACAGTTGCATTGAAATTCGAGCATCGTAACAGTAAAGGATGCAATTATGGC-CCCCATATGAGTGGCAAGTTTATAAgtatgttgctcatcctattgtctttcctttgtcatgggcactatttctttctgactattggcattgtttgctag------------

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 4
GTTGCATTGAAGCTTGAGCATCGAAACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtacttaatacagtcatctttcatttgtaccaga----ttattctctgctctttgagtttactgattattacctttcctactag-----
|| ||||||||| ||||||| || || || ||||| |||||||||||  | || |||||||||||||| ||| |||| | ||| | |   || |  |||  |||  |    |    |||   | |  | ||    |||  |  |  ||   |||||  || |     
GTAGCATTGAAGTTTGAGCACCGGAATAGCAAAGGATGCAATTATGGCCCTCCTTATGAGTGGCAAGTCTACAAgtaag-actaattgtggttaaatttgttttaaatttaaaggcttaaattatcattttgatttttgtttttctttctttttcccccttgaaaag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCATTGAAGCTTGAGCATCGAAACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtacttaatacagtcatctttcatttgtaccagattattctctgctct-ttgagtttactgattattacctttcctactag
||||| |||||| |||| ||  ||| ||||||||| ||||| |||||  | || ||||||||||||||||||  |||||||   | |    |    |||  ||| |    | ||  | |||   || | | ||||  || ||                 
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagc-attgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-------------

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|66915500|gb|CX102348.1|CX102348
EST:     AACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCA                         TAATCTTAATGGCTGCTATGGCATACCAGCTGTCCACTACAAGGGTCGTCA
genomic: AACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtactt ... ttcctactagTAATCTTAATGGCTGCTATGGCATACCAGCTGTCCACTACAAGGGTCGTCA