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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggttcccctggcgagcaatgaaccattgtcatatctagctatgagtttagagtgtcagttcttatataatctgtttttacatttctgcagTAAAGTTCCTGAGGAATTTGTTCTGCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTG

Basic information

species Oryza sativa
transcript LOC_Os01g69210.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69210.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G126468_T01 (Zea mays), 3'ss of exon 11
-gtggttcccctggcgagcaatgaaccattgtcatatctagctatgagtttagagtgtcagttcttatataatctg-tttttacatttctgcagTAAAGTTCCTGAGGAATTTGTTCTGCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTG
  || |||  | | | | || |||          || ||    || ||||||| | | ||   |||||||||||    |||| || |  |||||||||||||| ||||| |||||||||||||| ||||||||||||||||| || || |||||||||||  | ||||
gttgtttctaccgacaaccagtga----------taactg---ataagtttagtgcgaca---cttatataatccaacttttgcaatcatgcagTAAAGTTCCCGAGGAGTTTGTTCTGCAGTATCCTTCCAATGGAAATCCTCCTACTTTATTTCTTGCGATACGTG

upper sequence: LOC_Os01g69210.2 (Oryza sativa), 3'ss of exon 12
lower sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 11
gtggttcccctggcgagcaatgaaccattgtcatatctagctatgagtttagagtgtcagttcttatat---aatctgtttttacatttctgcagTAAAGTTCCTGAGGAATTTGTTCTGCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTG
          |||     |        || |  ||| ||   || | |  ||||  |    |  | |     ||| | || ||   | | |||||||| || || |||||||||||||| ||| | ||  | ||||||||||||||||| |||||| | |   | | ||
---------gtggtaccaagcatcttgttatagtattta-tgataaatacagaggtttgcattctgtgagtaaatatcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG
















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|58672225|gb|CK060911.1|CK060911
EST:     GCGGATGGATGGATTCCTCGGGAGCAAATATTAGGAGCTGAAGCTTTAAG                         TAAAGTTCCTGAGGAATTTGTTCTGCAGTACCCTTCCAATGGAAATCCCCC
genomic: GCGGATGGATGGATTCCTCGGGAGCAAATATTAGGAGCTGAAGCTTTAAGgtggttcccc ... atttctgcagTAAAGTTCCTGAGGAATTTGTTCTGCAGTACCCTTCCAATGGAAATCCCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctatgagtttagagtgtcagttcttatataatctgtttttacatttctgcagTAAAGTTCCTGAGGAATTTGTTCTGCAGTACCCTTCCAATGGAAATCCCCCAACCTTATTTCTTGCACTGCGTG
                                            catttct  CT-rich tract
                          ttatataatctgtttt  TA-rich tract