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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattagtttctttattttctcttattttcttgggtgaatcagtctgtaactctacagtcaaaatgatattttcagGGTAACTAAGCAACGCCTACGTGAAGCTACACTACAAGCTGTTGATTACTTAATATTGTGTATCGCCGGCATATGCATTGGAACAATTGCTAAAGTTAAA

Basic information

species Oryza sativa
transcript LOC_Os10g30610.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g30610.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G430675_T02 (Zea mays), 3'ss of exon 10
gtaaattagtttctttattttctcttattttcttgggtgaatcagtctgtaactctacagtcaaaatgatattttcagGGTAACTAAGCAACGCCTACGTGAAGCTACACTACAAGCTGTTGATTACTTAATATTGTGTATCGCCGGCATATGCATTGGAACAATTGCTAAAGTTAAA
|||||||  ||||| |  |   |  |     | || || ||||| ||| | ||| ||| |||||||||    |||||||||| | |||||| |  | |||||||||||||  || || ||||||||| ||||||||||||| || || ||||||||||| |||||||||| ||||  |
gtaaattgttttctgtgatagtttctg----catgtgttaatcaatctatgactatactgtcaaaatg----tttcagGGTAGCAAAGCAAAGGTTGCGTGAAGCTACACAGCAGGCCGTTGATTACCTAATATTGTGTATTGCTGGTATATGCATTGGTACAATTGCTAGAGTTCGA
















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|112786147|gb|EE592158.1|EE592158
EST:     TATTTGGGGTA-                         GGTAACTAAGCAACGCCTACGTGAAGCTACACTACAAGCTGTTGATTACT
genomic: TATTTGGGG-AGgtaaattagt ... atattttcagGGTAACTAAGCAACGCCTACGTGAAGCTACACTACAAGCTGTTGATTACT
EST: gi|29637152|gb|CB642161.1|CB642161
EST:     GATAGGAAAACACCTGGTGTACTTGCACAATACAAATATTATTTGGGGAG                         GGTAACTAAGCAACGCCTACGTGAAGCTACACTACAAGCTGTTGATTACTT
genomic: GATAGGAAAACACCTGGTGTACTTGCACAATACAAATATTATTTGGGGAGgtaaattagt ... atattttcagGGTAACTAAGCAACGCCTACGTGAAGCTACACTACAAGCTGTTGATTACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattttcttgggtgaatcagtctgtaactctacagtcaaaatgatattttcagGGTAACTAAGCAACGCCTACGTGAAGCTACACTACAAGCTGTTGATTACTTAATATTGTGTATCGCCGGCATATGCATTGGAACAATTGCTAAAGTTAAA
                       ctgtaac  putative branch site (score: 3)
                                              tattttc  putative PPT
                                     tcaaaatgatatttt  TA-rich tract