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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtgcatccttctaaaccttgcaccatttttccttgctattactcatctgactacttaagtataaccgaaagcgttacagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCTAGCAAAAAACGCCTAGCCAAGCATGTGTTGGATGTGACAGGTGTTACAA

Basic information

species Oryza sativa
transcript LOC_Os01g63270.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G085577_T01 (Zea mays), 3'ss of exon 10
gtatgtgtgcatccttctaaaccttgcaccatttttccttgctattactcatctgactacttaagtataaccgaaagcgtt--acagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCTAGCAAAAAACGCCTAGCCAAGCATGTGTTGGATGTGACAGGTGTTACAA
||||||| ||    | ||||  |||  | | ||  | ||   | | | |  |||  | ||   |||||||| |||| ||||  |||||||||||||||||||||||||||||||||||||||| |||| |||||  || |||| || ||||| ||||| |||||||||||||||||||||||||| |
gtatgtg-gctatatgctaatgcttctaaccttgcttctgcttgtcattactctatccac---agtataactgaaaacgttcaacagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCAGCAGCCAAGTTATCTTGCAAGAAGCGCCTGGCCAAACATGTGTTGGATGTGACAGGTGTTACGA
















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|29623807|gb|CB628818.1|CB628818
EST:     AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAA                         TTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAACTAAGTTGGCT
genomic: AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAAgtatgtgtgc ... agcgttacagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCT
EST: gi|58610009|gb|CK038042.1|CK038042
EST:     AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAA                         TTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCT
genomic: AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAAgtatgtgtgc ... agcgttacagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCT
EST: gi|699986|gb|D46277.1|D46277
EST:     AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAA                         TTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCT
genomic: AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAAgtatgtgtgc ... agcgttacagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCT
EST: gi|29623647|gb|CB628658.1|CB628658
EST:     AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAA                         TTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCT
genomic: AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAAgtatgtgtgc ... agcgttacagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCT
EST: gi|58657279|gb|CK045959.1|CK045959
EST:     AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAA                         TTTGCAGATGATGAAAAGCTTCATGCT
genomic: AAACAGATCAGTGGACAAGCAACCTTGATCTTCTTACCGGACTTCGGAAAgtatgtgtgc ... agcgttacagTTTGCAGATGATGAAAAGCTTCATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttttccttgctattactcatctgactacttaagtataaccgaaagcgttacagTTTGCAGATGATGAAAAGCTTCATGCTGAGTGGGCATCAGCTAAGTTGGCTAGCAAAAAACGCCTAGCCAAGCATGTGTTGGATGTGACAGGTGTTACAA
                                  gtataac  putative branch site (score: 3)
                              ttaagtataa  TA-rich tract