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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatggatgtcctcgtacttctgtgttaaactttttaaaggatgctcaatgttggttaatgtttttaagatatacaactacctcctctgccttttattttcccataatattccttagccttttctcatgagaaattctaatttatgcagGCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAAAGTTGGCAGTCCTGTAGCCCTTATGATTTTTGGGGCCTATTCTGAATTTACTC

Basic information

species Oryza sativa
transcript LOC_Os09g28570.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g28570.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G368058_T01 (Zea mays), 3'ss of exon 4
gtgatggatg-tcctcgtacttctgtgttaaac--------tttttaaaggatgctcaatgttggtta---atgtttttaa-gatatacaactacctcctct----gccttttattttcccataatattccttagccttttctcatgagaaattctaatttatgcagGCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAAAGTTGGCAGTCCTGTAGCCCTTATGATTTTTGGGGCCTATTCTGAATTTACTC
|| |  | || |  |  || |||  || | |          |||||  |   |     || | |||||   ||  ||  |  |||     || || |  | |    | | ||| |  |   ||||  ||    ||  |||| || | | |||    |||  |||||||| ||||| || ||||| |||||||||||||| ||||| ||||| |||||||||| | |||| |||||||||| ||||||   |||| |||||||    |
gtaactggtgctttttataattccatgctcagtctgttctttttttccacattaacacatctgggttatacatacttgcatcgattgtttacgacattttattggaggcatttctaatattataagttttaccaga-ttttgtcttcaaaaa----aataaatgcagGCCGTGGGAATTGTTGCTTCTGTTGGAGATTCGGTGAAACATATCAAAGTTGGCACTTCTGTTGCCCTTATGACTTTTGGAAGCTATGCTGAATTCGTGC

upper sequence: LOC_Os09g28570.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G147191_T02 (Zea mays), 3'ss of exon 9
gtgatggatgtcctcgtacttctgtgttaaactttttaaaggatgctca--atgttggttaatgtttttaagatatacaactacctcctctgccttttattttcccataatattccttagccttttctcatgagaaattctaatttatgcagGCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAAAGTTGGCAGTCCTGTAGCCCTTATGATTTTTGGGGCCTATTCTGAATTTACTC
|| ||  ||      |   |||    ||||  |||  | |   || | |  |  ||     | |  |||       ||     | || ||  |      ||| | ||| || ||  |     ||| || ||||| |||   ||| |||||||| |||||| || |||||  |||||||||||||||| |  ||||| |||||||||| |||||| |||||||||| |||||||  |||| ||||||| ||  
gtaatcaat-----tgactttcctcattaatttttgcataaattgtttatcacatttagctacgacttttctgggcactggggcatcatcgac------tttgctcattatttttttccctatttccttatgaggaatctcaatgtatgcagGGTGTGGGAATTGTTGCCGCTGTTGGAGATTCAGTCAGTCATATCAAAGTTGGCACTCCTGTGGCCCTTATGACTTTTGGGAGCTATGCTGAATTCACGG
















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|88405965|gb|CI591360.1|CI591360
EST:     GTGGTGCTAAAGAAACTGCTGCACGCCTTCCGTTGGATGCCGGTTTTGAG                         GCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAAAGTT
genomic: GTGGTGCTAAAGAAACTGCTGCACGCCTTCCGTTGGATGCCGGTTTTGAGgtgatggatg ... atttatgcagGCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAAAGTT
EST: gi|58688798|gb|CK077485.1|CK077485
EST:     GTGGTGCTAAAGAAACTGCTGCACGCCTTCCGTTGGATGCCGGTTTTGAG                         GCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAA
genomic: GTGGTGCTAAAGAAACTGCTGCACGCCTTCCGTTGGATGCCGGTTTTGAGgtgatggatg ... atttatgcagGCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttcccataatattccttagccttttctcatgagaaattctaatttatgcagGCTGTGGGCATCGTTGCATCTGTTGGAGATTCAGTGAACCATATTAAAGTTGGCAGTCCTGTAGCCCTTATGATTTTTGGGGCCTATTCTGAATTTACTC
                                        ttctaat  putative branch site (score: 2)
                                   agaaattctaatttat  TA-rich tract