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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgatgcactaaaacttttgcatttgtttgcattgatcagtatctagactgaagtgtcaatgaactaactgtttgctgattttttttttcatcatgtacagAGTGCTATCTCAGTTTTATCTTCTCTGACGGTTGTTGCTCCAGATTACTTGGACTCTCTTGCGAATCTTGGTGTTGCCTACATTCAAAG

Basic information

species Oryza sativa
transcript LOC_Os01g67920.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67920.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G025451_T01 (Zea mays), 3'ss of exon 6
gtactgatgcactaaaacttttgcatttgtttgcattgatcagtatctagactgaagtgtcaatgaactaactgtttgctgattttttttttcatcatgtacagAGTGCTATCTCAGTTTTATCTTCTCTGACGGTTGTTGCTCCAGATTACTTGGACTCTCTTGCGAATCTTGGTGTTGCCTACATTCAAAG
||| || |   || ||| | || ||||| | |  | |||||   ||| |  | |  || ||    ||  || |  ||||||||||||   | || | | | |||||||||||||||||| |||||||||| |||| |||||||||||| ||||||||||| ||||| |||||||| ||||| |||||||||||
gtattg-tatgctgaaattgtttcatttttctctactgatcttcatc-atgcagctgtatctgcaaag-aattaattgctgattttt---tgcaccctatccagAGTGCTATCTCAGTTCTATCTTCTCTCACGGCTGTTGCTCCAGACTACTTGGACTCCCTTGCAAATCTTGGCGTTGCATACATTCAAAG
















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:     CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAG                         AGTGCTATCTCAGTTTTATCTTCTCTGACGGTTGTTGCTCCAGATTACTTG
genomic: CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAGgtactgatgc ... tcatgtacagAGTGCTATCTCAGTTTTATCTTCTCTGACGGTTGTTGCTCCAGATTACTTG
EST: gi|58688532|gb|CK077219.1|CK077219
EST:     CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAG                         AGTGCTATCTCAGTTTTATCTTCTCTGACGGTTGTTGCTCCAGATTACTTG
genomic: CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAGgtactgatgc ... tcatgtacagAGTGCTATCTCAGTTTTATCTTCTCTGACGGTTGTTGCTCCAGATTACTTG
EST: gi|58664547|gb|CK053233.1|CK053233
EST:     CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAG                         AGTGCTATCTCA
genomic: CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAGgtactgatgc ... tcatgtacagAGTGCTATCTCA
EST: gi|58688799|gb|CK077486.1|CK077486
EST:     CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAG                         AGTGCTATCTCA
genomic: CTGTTTGGAATATCCTTGGTTTGGTTCTTCTTCGTAGTGGTCAGCTTCAGgtactgatgc ... tcatgtacagAGTGCTATCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactgaagtgtcaatgaactaactgtttgctgattttttttttcatcatgtacagAGTGCTATCTCAGTTTTATCTTCTCTGACGGTTGTTGCTCCAGATTACTTGGACTCTCTTGCGAATCTTGGTGTTGCCTACATTCAAAG
                                 ttttttttttcatcat  CT-rich tract
                                attttttttttcatca  TA-rich tract