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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgccacttgtctgaacattggattgaatttttcttgtgatgcttcatttttttcattgatcttggattctctgaccaaatataaaataattttgtgactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGTACTCGTTCTGTCAG

Basic information

species Oryza sativa
transcript LOC_Os01g18630.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g18630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G077233_T06 (Zea mays), 3'ss of exon 7
gtttgccacttgtctgaacattggattgaatttttcttgtgatgcttcatttttttcattgatcttggattctctgaccaaatataaaataattttgtgactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGTACTCGTTCTGTCAG
                       | |||    |   ||   |||| |  || || | ||  || |     |   |  | || ||| ||| | |||||| | ||||||| |||||||   |||| ||||| |||||||||||||||||| |||||||||| | | |||||||||
-----------------------gtttggtgctggtttcccatgcattgttattgtgatgtatgtatttgtacttatctaagtatgaaaca-ttttgtaattgagcagACAAGCCCACAGAAAGTGTGCACTCAGATTGGTCTCTGTGTATTTGATGGTGCCCATTCTGTCAG
















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|86596608|gb|CI286521.1|CI286521
EST:     AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAG                         GCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
genomic: AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAGgtttgccact ... gactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
EST: gi|29662754|gb|CB659029.1|CB659029
EST:     AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAG                         GCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
genomic: AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAGgtttgccact ... gactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
EST: gi|86904214|gb|CI306632.1|CI306632
EST:     AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAG                         GCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
genomic: AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAGgtttgccact ... gactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
EST: gi|29665540|gb|CB661815.1|CB661815
EST:     GGGACATGATCCTCGAGATGCTCATAGCACAG                         GCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
genomic: GGGACATGATCCTCGAGATGCTCATAGCACAGgtttgccact ... gactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
EST: gi|29645988|gb|CB650995.1|CB650995
EST:     GGGACATGATCCTCGAGATGCTCATAGCACAG                         GCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
genomic: GGGACATGATCCTCGAGATGCTCATAGCACAGgtttgccact ... gactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
EST: gi|29664682|gb|CB660957.1|CB660957
EST:     AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAG                         GCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
genomic: AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAGgtttgccact ... gactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
EST: gi|29683212|gb|CB679487.1|CB679487
EST:     AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAG                         GCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT
genomic: AAGTTGTGCGGGACTACGGGGACATGATCCTCGAGATGCTCATAGCACAGgtttgccact ... gactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcattgatcttggattctctgaccaaatataaaataattttgtgactgagcagGCAAGCCCCATGAAACTGTGCTCTCAGATTGGTCTCTGTGCATTTGATGGTACTCGTTCTGTCAG
                  ctctgac  putative branch site (score: 3)
                          aaatataaaataattt  TA-rich tract