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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTTGGTACATGTGGCACGGAAGATGCCTAAAAATGCCCATGCACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatgaatcttcactttgaaaaattgaagttatttattttctgcataaagctcaattggctgcagaaatcttccag

Basic information

species Oryza sativa
transcript LOC_Os01g67920.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67920.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G025451_T01 (Zea mays), 5'ss of exon 4
GCTTTGGTACATGTGGCACGGAAGATGCCTAAAAATGCCCATGCACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatgaatcttcactttgaaaaattgaagttatttattttctgcataaagctcaattggctgcagaaatcttccag
|||||||| |||||||| || || |||||||| ||||| ||||||||||||||||||||||||||||| ||||| ||||||||| ||||||||||     ||||||| ||| ||||| |||| |||  |||   | ||| |||| ||||| | ||||||   |  || |||
GCTTTGGTTCATGTGGCCCGAAAAATGCCTAAGAATGCTCATGCACATTTTATGTTGGGTTTGATGTATCAAAGACTTGGTCAGGCACAGAAGgta----aatcttctctt-gaaaagttgatgttgcttagcgtttgcgtaaaactcaagtagctgcatttaaatttcag

upper sequence: LOC_Os01g67920.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA04G36580.1 (Glycine max), 5'ss of exon 3
GCTTTGGTACATGTGGCACGGAAGATGCCTAAAAATGCCCATGCACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatg-aatcttcact-ttgaaaaattgaagttatttattttc-tgcataaagctca---attggctgcagaaat-cttccag
|  ||||| ||||| ||| |||||||||| |||||||| || || ||||||||  | || ||||||||||||||  |  | || || || |||||   |  |||   || |  | |||||||    |  | | ||||  | |||| || |     ||||      |||||  || |||
GGCTTGGTTCATGTTGCAAGGAAGATGCCCAAAAATGCTCACGCTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAGgtacttttaataagcagtgcttaaaaatttgcctgttatgttttgatacatatagtttgctcattgttcattgaaatgttttcag

upper sequence: LOC_Os01g67920.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA06G18330.2 (Glycine max), 5'ss of exon 3
GCTTTGGTACATGTGGCACGGAAGATGCCTAAAAATGCCCATGCACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtga-atgaatcttcact-ttgaaaaattgaagttatttattttctgcataaagctca---attggctgcagaaat-cttccag
|  ||||| ||||| ||| |||||||||| |||||||| || || ||||||||  | || ||||||||||||||  |  | || || || |||||   || |||  |||||  |   ||||| |  |  | | |||  | |||| ||       ||||      |||||  || |||
GGCTTGGTTCATGTTGCAAGGAAGATGCCCAAAAATGCTCACGCTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAGgtactattaataatcactgcttttaaatttacctgttatgtttgatacatatagtctgctcattgttcattgaaatattttcag

upper sequence: LOC_Os01g67920.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv17s0000g09890.t01 (Vitis vinifera), 5'ss of exon 3
GCTTTGGTACATGTGGCACGGAAGATGCCTAAAAATGCCCATGCACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatg--aatcttcactttgaaaaattgaagttatttattttctgcataaagctcaattggctgcagaaatcttccag-----------
| |||||||||||| ||| |||||||||| |||||||| ||||| ||||||||  | || || ||||| || ||| | ||||||||||| |||||   |    |  ||  |    |  | ||    | || |  || |||   |   | | |||  || ||    | ||               
GGTTTGGTACATGTAGCAAGGAAGATGCCCAAAAATGCTCATGCTCATTTTATACTTGGATTAATGTATCAGAGGTTGGGTCAGCCACAAAAGgtagcttttgaagtttgcccc-attattttggttaatatgcttgctgtccatcaccccatttact-cattcttttttggtatttattttag

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|29673835|gb|CB670110.1|CB670110
EST:     CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAG                         GCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
genomic: CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatgaat ... aatcttccagGCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
EST: gi|58688532|gb|CK077219.1|CK077219
EST:     CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAG                         GCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
genomic: CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatgaat ... aatcttccagGCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
EST: gi|58664547|gb|CK053233.1|CK053233
EST:     CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAG                         GCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
genomic: CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatgaat ... aatcttccagGCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
EST: gi|58664496|gb|CK053182.1|CK053182
EST:     CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAG                         GCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
genomic: CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatgaat ... aatcttccagGCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
EST: gi|58688799|gb|CK077486.1|CK077486
EST:     CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAG                         GCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA
genomic: CACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAGgtgaatgaat ... aatcttccagGCAATAGCGGCATATGAGAAGTCATCTGAGATATTGTTACAAGATGAAGAA