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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGCTAGTGATGTTTAACAAAGCAGCACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctcatgtccccttggatggactctggaaagtctggctttgctgttatgttgtgcaagtgtgcattacacatttacacatgaataacttgcttgt...

Basic information

species Oryza sativa
transcript LOC_Os02g40030.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G020976_T01 (Zea mays), 5'ss of exon 2
TGTTGCTAGTGATGTTTAACAAAGCAGCACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctcatgtccccttggatggactctggaaagtctggctttgctgttatgttgtgcaagtgtgcattacacatttacacatgaataacttgcttgt----
|| ||||||||||||||||||||||||| || |||||||| || ||||| || ||||||||||| |||||||||||||||||     ||| |     |    | ||   |   |          |  |   |   |   |||     | ||  | |       |   | ||  | |     
TGCTGCTAGTGATGTTTAACAAAGCAGCTCTTTCTTCATACAAATTCCCTTGCGCAAATGTCATCACGCTCCTTCAGgtactggatgtgttct----ggcaaaatcgacatgcttcatgcacatttctggatgcagtgcgtgaaaggttcatgtctgtgttccatcgatttcttagcaaac

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 2
TGTTGCTAGTGATGTTTAACAAAGCAGCACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctcatgtccccttggatggactctggaaagtctggctttgctgttatgttgtgcaagtgtgcattacacatttacacatgaataacttgcttgt---
|||||||||||||||||||||||||||| || ||||| ||||||||||| ||||| |||||||| || ||||||||||||||    ||||   || |||    || |||   |  ||  |       | |  ||       ||   | | |  || |    ||  |  | || || |   
TGTTGCTAGTGATGTTTAACAAAGCAGCTCTCTCTTCGTATAATTTCCCTTGTGCGAATGTCATCACACTCCTTCAGgtactg--gatgtgttctgggaaaatctatggcgtgcatgcttcatgcacttttctggatgga-gtatctgaaagtttcatgtctgtgttccatgatttttta

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 2
TGTTGCTAGTGATGTTTAACAAAGCAGCACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctcatgtccccttggatggactctggaaagtctggctttgctgttatgttgtgcaagtgtgc-attacacatttacacatgaataacttgcttgt----
|  |  | ||||| || ||||||||||| || ||||| ||| ||||||| ||||||| |||||| || ||| ||||||||  |  |  | |  |||   |    ||| |  | ||     ||||  |||| |  |  | ||||   |||       | | |||| | |  ||  |||     
TTCTATTGGTGATCTTCAACAAAGCAGCCCTTTCTTCTTATCATTTCCCTTGTGCAAGTGTCATCACACTCTTTCAGgtagattcctggccatcttttttcttttcttggcaatcaa---ttgcc-ttatataatcaaggtgtttgattttttcactcctcatgca-actttaattgaaaat

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|88422800|gb|CI573962.1|CI573962
EST:     CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAG                         ATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
genomic: CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctca ... acatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
EST: gi|58667565|gb|CK056251.1|CK056251
EST:     CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAG                         ATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
genomic: CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctca ... acatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
EST: gi|88422801|gb|CI573963.1|CI573963
EST:     CACTGTCTTCATATAATTTACCCTGTGCAAATGTTATTAGGCTCCTTCAG                         ATGGTGTGCTCAAAAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT
genomic: CACTGTCTTCATATAATTTCCCCTGTGCAAATGTCATTACGCTCCTTCAGgtacttctca ... acatgtgcagATGGTGTGCTCAACAGGCCTTCTTTATGTTCTGAGGCGGCTAAAGATAATT