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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGAGGCGGCAGCTGCTGCAGGTGAGAGTAGCTTTAGATCCTTCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgcagagtccactagactttacactaagctgccaaacgatgaaccatgctgattttcctccttctctccag

Basic information

species Oryza sativa
transcript LOC_Os12g13590.2
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g13590.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM5G823484_T01 (Zea mays), 5'ss of exon 3
GCAGAGGCGGCAGCTGCTGCAGGTGAGAGTAGCTTTAGATCCTTCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgcagag-tccactagactttacactaagctgccaaacga------tgaaccatgctgattttcctccttctctccag---
  ||||| ||||||| | || |||||||| |||||||||||||| ||||||||||||||||||||| | || || || |||||||||||||||||||| | |   | ||||  |   |  |  ||  |||  || | ||      | || ||||||    || |||  | ||  | |   
CAAGAGGTGGCAGCTTCAGCTGGTGAGAGCAGCTTTAGATCCTTTATGATTGCTGTGCAGCGTTGTACCAGTAGCGTAGCTATTCTTCAGCAGgtaatcttcgctgatccatcaagttgcaaccttggcttgcatatgaagtcaataaagcatgcttgaatttctctgtttcctctgtag

upper sequence: LOC_Os12g13590.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GLYMA07G05160.1 (Glycine max), 5'ss of exon 17
GCAGAGGCGGCAGCTGCTGCAGGTGAGAGTAGCTTTAGATCCTTCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgcagagtccac-----tagactttacactaagctgccaaacgatgaaccatg-ctgattttcctccttctctccag
|||||||||||||| ||||| ||||| ||||| || ||||| || ||||||||||| || |||| ||  |||||||| |||||| |||| || |||  ||   ||| |        ||     ||   |  |||   |||| |    | ||| ||||  |   |  || ||| |||
GCAGAGGCGGCAGCAGCTGCTGGTGAAAGTAGTTTCAGATCTTTTATGATTGCTGTACAACGTTCTGGAAGCAGTGTAGCTATTATTCAACAAgtacaatattgagcctttatttttaattaatattttttgctat-aaacaaaaccctatggctgaaatgagtaattttctgcag

upper sequence: LOC_Os12g13590.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GLYMA16G01660.1 (Glycine max), 5'ss of exon 17
GCAGAGGCGGCAGCTGCTGCAGGTGAGAGTAGCTTTAGATCCTTCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgcagagtccactagactttacactaag-----ctgccaaacgatgaaccatg---ctgattttcctccttctctccag
||||||||||| || ||||| ||||| ||||| || ||||| ||||||||||||||||| |||| ||  |||||||| |||||| |||| || |||  ||   ||| |   | || |||  | |||       ||| | |     |||| |    ||||  |   |  |||||| |||
GCAGAGGCGGCGGCAGCTGCTGGTGAAAGTAGTTTCAGATCTTTCATGATTGCTGTGCAACGTTCTGGAAGCAGTGTAGCTATTATTCAACAAgtacaatattgagcc---ttgatttttaattaatattttttgctataaacaaaaccctataactgaaatgagtaattctctgcag

upper sequence: LOC_Os12g13590.1 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 5'ss of exon 17
GCAGAGGCGGCAGCTGCTGCAGGTGAGAGTAGCTTTAGATCCTTCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgcagagtccactagactttacactaagctgccaaacg-atgaaccatgctgattttcctccttctctccag------------------------
||||| || || |||||||| ||||| || || || ||||| |||||| | ||||| ||||||||||||||||||||||||||| ||||||| ||    |  |  | | | |    ||||| | |   |   ||        |  |   |||||       |  | |  |                         
GCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAAgttcgttagatggccgaatgccttttactcaattattttaattatgctcatgagaatgattagaaatttattttgaaataaattggactgctttttctgcag

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|33822211|gb|CF336920.1|CF336920
EST:     ATGANTTGCTGTGCNAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAG                         TACTTCTCAAATACTATATCTCGGCTCCTGCTNGCCTGTGGATGGTGCCCA
genomic: ATGA-TTGCTGTGC-AGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgca ... ttctctccagTACTTCTCAAATACTATATCTCGGCTCCTGCT-GCCTGTGGATGGTGCCCA
EST: gi|29669745|gb|CB666020.1|CB666020
EST:     TCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAG                         TACTTCTCAAATAATATATCTCGGCTCCTGCTGCCTGTGGATGGTGCCCAC
genomic: TCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgca ... ttctctccagTACTTCTCAAATACTATATCTCGGCTCCTGCTGCCTGTGGATGGTGCCCAC
EST: gi|33822202|gb|CF336916.1|CF336916
EST:     TCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAG                         TACTTCTCAAATACTATATCTCGGCTCCTGCTGCCTGTGGATGGTGCCCAC
genomic: TCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAGgtaatatgca ... ttctctccagTACTTCTCAAATACTATATCTCGGCTCCTGCTGCCTGTGGATGGTGCCCAC