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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtactaggatgtcacatccgtactaggcttgttttttatgggacggtgggagtaaagtacagtatatcatcactcatgtaatgactaattattttacagACAGTAGATACCTACTACCGCCGTTGCAGCAGTGCCAGTTATGTTGGTAATGTGTCAGTTCCCTTGCTATGTGTCAATGCTTTGGATGACCCCCTCTGCA

Basic information

species Oryza sativa
transcript LOC_Os01g65070.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65070.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G005444_T01 (Zea mays), 3'ss of exon 10
---------------------------------------agtactaggatgtcacatccgtactaggcttgttttttatgggacggtgggagtaaagtacagtatatcatcactcatgtaatgactaattatt---ttacagACAGTAGATACCTACTACCGCCGTTGCAGCAGTGCCAGTTATGTTGGTAATGTGTCAGTTCCCTTGCTATGTGTCAATGCTTTGGATGACCCCCTCTGCA
                                       | ||  |  |  | | ||    | ||    |||      ||  |  || | |  ||  |  | ||||||    |   || | |||    ||      || |||||||| ||||| ||||| ||||| ||||| ||||| ||||| || || |||||||||||||||||||| ||| |||||||||||||||| || || ||||
gtaccctctatcatttgcttttatggcaatcacttctctattataaacaaataatatttcaagtactgctgtaacggctgatattgttgaa--aattttgaatatatctgatcgtgtgcagtgatctttttcccccttgcagACAGTGGATACTTACTATCGCCGGTGCAGTAGTGCTAGTTACGTCGGAAATGTGTCAGTTCCCTTGCTTTGTATCAATGCTTTGGATGATCCTCTTTGCA
















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|88381842|gb|CI682518.1|CI682518
EST:     CTATCCGGGAATTTGACCACCATGCCACTTGCATGGTTGCAAAATATGAG                         ACAGTAGATACCTACTACCGCCGTTGCAGCAGTGCCAGTTATGTTGGTAAT
genomic: CTATCCGGGAATTTGACCACCATGCCACTTGCATGGTTGCAAAATATGAGgtacctgtca ... tattttacagACAGTAGATACCTACTACCGCCGTTGCAGCAGTGCCAGTTATGTTGGTAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgggagtaaagtacagtatatcatcactcatgtaatgactaattattttacagACAGTAGATACCTACTACCGCCGTTGCAGCAGTGCCAGTTATGTTGGTAATGTGTCAGTTCCCTTGCTATGTGTCAATGCTTTGGATGACCCCCTCTGCA
                                      gactaat  putative branch site (score: 2)
                                            ttatttt  CT-rich tract
                               atgtaatgactaatta  TA-rich tract