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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattccatcattcagatgagtttgtagtttgctttagtagttgtgaaacatacaaaatactcgaggcttatatttcatttctgctgaatttggatttcagTTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATG

Basic information

species Oryza sativa
transcript LOC_Os06g07090.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g07090.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G030144_T03 (Zea mays), 3'ss of exon 16
aattccatcattcagatgagtttgtagtttgctttagtagttgtgaaacatacaaaatactcgaggctt----atatttcatttctgctgaatttggatttcagTTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATG
| | | | || ||| | | ||| | | || ||||| | || | |||| | | | | || |||||||| |||||||||||||||||||| || ||||||| ||| ||||||||||||||||||| || ||||||||||||||||||||||| || ||||| ||||
--tactgatgatgaaattg--ccatagataagatatgtatataactgaaattaaaaatggctgtactttcctaacatttgctgttttgctcacctgtgtttcagTTCATCCAGTTGCGTTTGGACCCAGCGAGCAGCAGCACTCTTCCTGCCAGTGGAAATGGGTCAGTTACACAAAGCCTCAGTGTCACCAACAACCAGCATG

upper sequence: LOC_Os06g07090.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G017421_T02 (Zea mays), 3'ss of exon 17
-----aatt-ccatcattcagatgagtttgtagtttgctttagtagttgtgaaacatacaaaatactcgaggcttatatttcatttctgctgaatttggatttcagTTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATG
|||| | | |||| |||| || | || ||| || | | | | || | | || | || | | ||||||| || |||||||| |||||||||||||||||||| |||||||||| ||| ||||||||||||||||||| || || |||||||||||||||||||| || ||||||||||
ggtgaaattatcgcagataagatatgtttataactggcattaaaaggtctagt---ttcgtaacatttgatgttttg--ctaacctctgctgc-cctgtgtttcagTTCATCCAGTTGCGTTTGGACCCAGCTAGCAGCAGCACTCTTCCTGCCAGTGGAAATGTGTCAGTCACACAAAGCCTCAGTGTCACTAACAACCAACATG
















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|86430463|gb|CI082886.1|CI082886
EST:     TGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAG                         TTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGT
genomic: TGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAGgtattacctt ... tggatttcagTTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacatacaaaatactcgaggcttatatttcatttctgctgaatttggatttcagTTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATG
                      ttatatttcatttct  TA-rich tract