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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actagggacagtgttggcgacgaacttgaagcagcacattatttttttaaaaaaaaaatctatttatgtgtttattctgattgattctcaatatttgtagCTTCTGGACAAGGTTATCAGGAAACTTGATGGAACAGTCAGCACATTTTCTAGGATTGACACTGAGTTTGCTTATATGATCCAAGTAACAAAATCTTACA

Basic information

species Oryza sativa
transcript LOC_Os01g74310.4
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g74310.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G459642_T02 (Zea mays), 3'ss of exon 4
actagggacagtgt----tggcgacgaacttgaagcagcacattatttttttaaaaaaaaaatctatttatgtgtttattctgattgattct-caatatttgtagCTTCTGGACAAGGTTATCAGGAAACTTGATGGAACAGTCAGCACATTTTCTAGGATTGACACTGAGTTTGCTTATATGATCCAAGTAACAAAATCTTACA
  |||||||  |||    ||  || || || | ||| |||||   ||| |||   |  || ||    || |    |   ||||||  |   | | |||| ||||||||||||| |||||||| ||||||||||||||||| | |||||||||||| |||||||||| ||||||| ||||||||||||||||||| ||||| | ||
--tagggactatgtagtttgtggatgacctggtagctgcacaaattttgtttttgagtaacattggcttttccact---tctgatcaaaattactatatatgtagCTTCTGGATAAGGTTATGAGGAAACTTGATGGAACTGCCAGCACATTTTCCAGGATTGACAATGAGTTTTCTTATATGATCCAAGTAACGAAATCATGCA
















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|29640366|gb|CB645375.1|CB645375
EST:     AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAAT                         G
genomic: AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAATgtggtattat ... atatttgtag-
EST: gi|29640366|gb|CB645375.1|CB645375
EST:     AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAAT                         G
genomic: AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAATgtggtattat ... atatttgtag-
EST: gi|29640366|gb|CB645375.1|CB645375
EST:     AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAAT                         G
genomic: AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAATgtggtattat ... atatttgtag-
EST: gi|29640366|gb|CB645375.1|CB645375
EST:     AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAAT                         G
genomic: AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAATgtggtattat ... atatttgtag-
EST: gi|29675980|gb|CB672255.1|CB672255
EST:     AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAAT                         CTTCTGGACAAGGTTATCAGGAAACTTGATGGAACAGTCAGCACATTTTCT
genomic: AAGCTATATCATCAGCTTTGTCACAGTCAACAGAATATGAGCAGTTGAATgtggtattat ... atatttgtagCTTCTGGACAAGGTTATCAGGAAACTTGATGGAACAGTCAGCACATTTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaaaaaaaaaatctatttatgtgtttattctgattgattctcaatatttgtagCTTCTGGACAAGGTTATCAGGAAACTTGATGGAACAGTCAGCACATTTTCTAGGATTGACACTGAGTTTGCTTATATGATCCAAGTAACAAAATCTTACA
     aaaaaaaatctattta  TA-rich tract