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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaagcatcactttatgctttagagtagaattgtcaaattattgttattttaatgattattatgctctcaacctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGTGTTCAACTTCATGTTGGTGACG

Basic information

species Oryza sativa
transcript LOC_Os06g33710.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g33710.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G047867_T01 (Zea mays), 3'ss of exon 6
gtaagaagcatcacttta----tgctttagagtagaattgtcaaattattgttattttaatgattattatgctctc-aacctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGTGTTCAACTTCATGTTGGTGACG
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gtaagaatgatcactctacctatgctcaaaattcaatgtataatagtgtgaatatattttttatgacttttctctccaaactatgcagGTTTCCAAAGAATTCTTTCCAAACTTATCCATTGGATTCAAAGATCCTCGTGTCCGACTTCATGTTGGTGATG
















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|33686636|gb|CF314875.1|CF314875
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|29681267|gb|CB677542.1|CB677542
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|29678039|gb|CB674314.1|CB674314
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|29661773|gb|CB658048.1|CB658048
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|58689103|gb|CK077790.1|CK077790
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|29674257|gb|CB670532.1|CB670532
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|38468529|gb|CF952660.1|CF952660
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|58690531|gb|CK079218.1|CK079218
EST:     CTCAGTGGAGAACATCGANTATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAA-TATCTGT-GGATTCAAAGATCCCCGT
genomic: CTCAGTGGAGAACATCGA-TATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
EST: gi|29660327|gb|CB656602.1|CB656602
EST:     CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGAT                         GTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT
genomic: CCTCAGTGGAGAACATCGATATATGTGAAATAGACCAGCTAGTTATTGATgtaagaagca ... acctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaattgtcaaattattgttattttaatgattattatgctctcaacctatgcagGTCTGTAAAGATTTCTTCCCACAACTATCTGTTGGATTCAAAGATCCCCGTGTTCAACTTCATGTTGGTGACG
                      ttttaat  putative branch site (score: 3)
     ttgtcaaattattgtt  TA-rich tract