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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagatactctcatgtcactgtgcctcttcccttataatatttgctctttctgtagtcacgaagttagttatttttagttgacatgtgtaaatcctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG

Basic information

species Oryza sativa
transcript LOC_Os02g58580.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g58580.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G017365_T08 (Zea mays), 3'ss of exon 6
gtatgagatactctcatgtcactgt--gcctcttcccttata-atatt-tgctctt-----tctgtagtcacgaa--gttagttatttttagttgacatgtgtaaatcctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
|||  |   | || || | || |||  | |||||||||| |  | ||| | || ||     |   | ||  | |   |||  |  |  ||   ||||   ||| | | ||    |||||||||||||||||||||||| |||||||||||||||||
gtac-atgcattcccagg-cattgttggactcttcccttgtgcacattatacttttgtaccttgctggttgccacacgttgatattgattgactgacgcttgttatttctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
















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|8858691|gb|AU096009.1|AU096009
EST:     ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAG                         TGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
genomic: ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagata ... cctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
EST: gi|29661174|gb|CB657449.1|CB657449
EST:     ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAG                         TGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
genomic: ATGAATTATCACTCTGTATGTTTGCATGTTCTTGCCGATTCAGTACGGAGgtatgagata ... cctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgtagtcacgaagttagttatttttagttgacatgtgtaaatcctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
                            agttgac  putative branch site (score: 4)
                                            tcctccatc  putative PPT
             aagttagttattttta  TA-rich tract