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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcattattctttgcttgttttcacaagtttgagtatatatcttgatatatctaccttttcttgggtaaagtagctgggctttcttattgctgtatcatgctatatttttactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCATGACCCAGTTCTTCCCCTTAACATCGAG

Basic information

species Oryza sativa
transcript LOC_Os07g26610.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g26610.1 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G069676_T03 (Zea mays), 3'ss of exon 16
gtatgtcattattctttgctt-gttttcac-aagtttgagtatatatcttgatatatctaccttttcttgggtaaagtagctgggctttcttattgctgtatcatgctatatttttactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCATGACCCAGTTCTTCCCCTTAACATCGAG
||||||   |||||||||||| ||| |  | ||  |||| |||| ||||||||  |  ||  |||||||  |  |   ||||||  |||||  ||  |   | |||  |||   |    || |||||||| ||||||||||||||||| ||||||||  || || | || || ||||| || ||||||||||| ||||| |||
gtatgtacatattctttgctttgttctttcgaaacttgaatatagatcttgatgca--taatttttcttctgcgagaaagctgga-tttctgcttatt---ttatggcataccat----acacagGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAG

upper sequence: LOC_Os07g26610.1 (Oryza sativa), 3'ss of exon 16
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 3'ss of exon 16
gtatgtcattattctttgcttgttttcacaagtttgagtatatatcttgatatatctaccttttcttgggtaaagtagctgggctttcttattgctgtatcatgctatatttttactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCATGACCCAGTTCTTCCCCTTAACATCGAG
                                     ||   | | | |||||||      |  || |  |    |  ||   ||   |  |     | |         |||  |  |   || |  | ||||| || | |||||| |||||  |  |  |  | || |||||||| || |||||||||||||||||||||
-------------------------------------gtgagtgt-tagatatatgagggctccctagaatc---tgcctccactacatagtataaatctttcatctcttttgcaaaaaatagATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAG
















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|89183519|gb|CI046084.1|CI046084
EST:     GAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: GAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|86831683|gb|CI301533.1|CI301533
EST:     CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|86259591|gb|CI065464.1|CI065464
EST:     TGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGTTTATCCCTCCAT
genomic: TGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|218504169|gb|FG954519.1|FG954519
EST:     CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|88268519|gb|CI378454.1|CI378454
EST:     AAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: AAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|87008287|gb|CI301045.1|CI301045
EST:     TAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: TAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|29660679|gb|CB656954.1|CB656954
EST:     CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|89186475|gb|CI048147.1|CI048147
EST:     CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|86426061|gb|CI071158.1|CI071158
EST:     CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|86892585|gb|CI312008.1|CI312008
EST:     CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
EST: gi|86258642|gb|CI064995.1|CI064995
EST:     CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGC                         GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT
genomic: CAATCAGTAAAGATGAATATCTGTGCAAAGCACCGAAGAACTATGAAGGCgtatgtcatt ... tactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtaaagtagctgggctttcttattgctgtatcatgctatatttttactacgcagGTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCATGACCCAGTTCTTCCCCTTAACATCGAG
                                         tttttact  CT-rich tract
                                     tatatttttacta  TA-rich tract