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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtcgagtggttcaaaataaataacaggattatatagtgtttcaaagtttacattatcacttcatgtgtgctgtgtgttaactactacttcatgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAACTGGTGCACAGCATACCACCTCTTGTGAAGGCACACGGAGGTATTCTAGT

Basic information

species Oryza sativa
transcript LOC_Os02g53210.7
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g53210.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G046407_T01 (Zea mays), 3'ss of exon 7
--ggtcgagtggttcaaaataaataacaggattatatagtgtttcaaagtttacattatcacttcatgtgtgctgtgtgttaactactacttcatgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAACTGGTGCACAGCATACCACCTCTTGTGAAGGCACACGGAGGTATTCTAGT
    |  |||||  |||||  |||       |  | |      | | | |   |||||| |||||  |||||||  ||| ||||||||||| | | ||||||||||||||| ||||||||||| || ||||| ||| |||||| |||   | |||||||||    |||| |||    ||| || ||  ||| ||||   || 
ggccttaagtggcccaaaacgaattttgccctcttctccaaagttagaat--gcattataacttcgagtgtgctaggtgataactactactccttcctgcagCATTTACAATCACATTCAAGTGTTCCTCCGGCGCATATCTCATGTCCCAGCTGGTGCACGATTTACCGCCTACCTTGATGGGACTAGGAAGTATAGCAGC
















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|29674942|gb|CB671217.1|CB671217
EST:     CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAG                         CATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
genomic: CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAGgtaaccttcc ... catgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
EST: gi|87031749|gb|CI272450.1|CI272450
EST:     CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAG                         CATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
genomic: CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAGgtaaccttcc ... catgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
EST: gi|38482043|gb|CF966104.1|CF966104
EST:     CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAG                         CATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
genomic: CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAGgtaaccttcc ... catgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
EST: gi|33692950|gb|CF321189.1|CF321189
EST:     CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAG                         CATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
genomic: CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAGgtaaccttcc ... catgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
EST: gi|58693404|gb|CK082091.1|CK082091
EST:     CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAG                         CATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
genomic: CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAGgtaaccttcc ... catgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
EST: gi|86827594|gb|CI272900.1|CI272900
EST:     CTGTATGTTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAG                         CATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
genomic: CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAGgtaaccttcc ... catgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
EST: gi|58600474|gb|CK011002.1|CK011002
EST:     CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAG                         CATTTACAAGCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC
genomic: CTGTATGGTTTTGTTGCCTTCTTTTCAACATGCAACAGGCATCGGCTTAGgtaaccttcc ... catgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttacattatcacttcatgtgtgctgtgtgttaactactacttcatgctgcagCATTTACAACCACATTCAAGTATTTCTCCGACGCCTATCTCGTGTTTTAACTGGTGCACAGCATACCACCTCTTGTGAAGGCACACGGAGGTATTCTAGT
                              tgttaac  putative branch site (score: 2)
                                       ctacttc  putative PPT
     acattat  TA-rich tract