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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgtacttagtttctagctattctatccaatcagatcacccttctagcctcttaaattaagcattagactattctgaactgaaatgtttgtttatgcactggaatttgttcggtagtgaagcggattgtttttctctgacagCTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTG

Basic information

species Oryza sativa
transcript LOC_Os03g03400.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g03400.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G382537_T01 (Zea mays), 3'ss of exon 5
-------------------------------------------gtgagtgtacttagtttctagctattctatccaatcagatcacccttctagcc----tcttaaat---taagcat---tagactattctgaactgaaa---tgtttgtt-tatgcactggaatttgttcggtagtgaagcggattgtttttctctgacagCTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTG
                                              |      | | |||  ||  ||  | |   | |     |   ||   |      | || |||   || |      | |  | || || |  | ||   ||||| || ||| ||||||  ||||||  |||||||||    |||   | ||||||||||||||||||||||||||||| ||||| |||||  |||||||||||||
gtgctttctttgcacatttgtacattatttgctcaaccatgctacaaacagtttaatttttcagtgatattgtgataccgttatagagttgaggatgctattttgaatatgtaggtgcctatggtttcttttggaaaggaacattgtttcttctatacactggggtttgtttagtagtgaagtaccttg---tcctctgacagCTCATTCCACTTGGAACTGGCTCAGATTTTGCTTGGACATTTGGCTG

upper sequence: LOC_Os03g03400.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G812553_T02 (Zea mays), 3'ss of exon 5
gtgagtgtacttagtttctagctattctatccaatcagatcacccttctagcctcttaaattaagcattagactattctgaactgaaatgtttgtttatgcactggaatttgttcggtagtgaagcggattgtttttctctgacagCTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTG
                  | | || ||   | | ||    |  || | ||  || |||  ||   | || ||  | | ||||||  ||   |  | |   || | |  ||| |||   | |||         || ||||||||||||||||||||||||||||||| ||||| |||||  |||||||||||||
-----------------gtgggtactc---ctattc---cctgccctttaagcttttagtttggacgtttga--actttgaactataagaatgatct---caattg--tttcttctaca-tgac--------ttgttctctgacagCTCATTCCACTTGGAACTGGCTCAGATTTTGCTCGGACATTTGGCTG
















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|58682220|gb|CK070907.1|CK070907
EST:     GTCCTGTCCATGCTCTTGATCAAGGACCTGATCATTCCACAGCGCTTGGT                         CTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTG
genomic: GTCCTGTCCATGCTCTTGATCAAGGACCTGATCATTCCACAGCGCTTGGTgtgagtgtac ... tctctgacagCTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttatgcactggaatttgttcggtagtgaagcggattgtttttctctgacagCTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTG
                                      ttgtttttctct  CT-rich tract
                                     attgttttt  TA-rich tract