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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacttgcttaagtttgtgtttatagcattacaatgcatagtgaatgatgcatcttctattcttgttctcagtgtccaacaggttcttttttatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATATTTATCACAAG

Basic information

species Oryza sativa
transcript LOC_Os06g30460.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g30460.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G082664_T01 (Zea mays), 3'ss of exon 10
---aacttgcttaagtttgtgtttatagcattacaatgcatagtgaatgatgcatcttctattcttgttctcagtgtccaacaggttcttttttatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATATTTATCACAAG
   || ||  | |  ||  | |    | | ||    || |||  | ||  |   | |    | | |||| |    |     ||   | ||| ||||  || |||| ||||| ||||||||||| |||||||| ||||| ||||||||||| ||| ||||  |||
tataattta-tcatcttcatctaagaatctttttcttgaataaagtat--tatctgtgaggtccatgttgtttcagcagtgcaaactgtttcttatcatgcagGTCATTGCCAAAAGGTTGCTCGAATCAAAACAGACGACTCCACATTTGTATCTATCCAAAG

upper sequence: LOC_Os06g30460.3 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv13s0074g00150.t01 (Vitis vinifera), 3'ss of exon 13
-aacttgcttaagtttgtgtttatagcattacaatgcatagtgaatgatgcatctt--ctattcttgttctcagtgtccaacaggttcttttttatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATATTTATCACAAG
 |  ||  | | |  | | ||| ||  | ||       || |  |     | | ||  ||    |||   | |   |    ||  |    | || | ||| ||||||| |||| ||||||| | |||||||| || |  ||||||||||||||||||||   ||
aatatttgtcatgcctctcttt-tataaataagggctttaatatagagctcctttttactgaagttgcatttaaattgagcca--tcagatgttgttttgcagGTGATAGCAACAAGGTTGTTGGAATCAAAACAAAATACTCCACATTTATATTTATCCTCAG
















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|58599848|gb|CK010376.1|CK010376
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGGCAAAAAGGTTGCTTGAATCAAAGCAGAACACTCCACATTTATA
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTG-CAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATA
EST: gi|218488261|gb|FG947096.1|FG947096
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
EST: gi|218481815|gb|FG945396.1|FG945396
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
EST: gi|58692196|gb|CK080883.1|CK080883
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
EST: gi|27578288|gb|CB000983.1|CB000983
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
EST: gi|27578255|gb|CB000950.1|CB000950
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
EST: gi|58678110|gb|CK066797.1|CK066797
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
EST: gi|218482631|gb|FG947596.1|FG947596
EST:     CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAG                         GTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT
genomic: CACAACAAAATGATGCATACGAAGATATCCCCAACAGTCAGATACGCAAGgtattctttg ... tatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgcatcttctattcttgttctcagtgtccaacaggttcttttttatattgtagGTGATTGCAAAAAGGTTGCTTGAATCAAAGCAGACCACTCCACATTTATATTTATCACAAG
                                     ttcttttttatatt  CT-rich tract
                                     ttcttttttatattgt  TA-rich tract