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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacagcgtacatagcatatgtgatgagctgtattgaaattcctatctgttctctggtgatatcctatctgtgttctgatgatgttgcattgttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT

Basic information

species Oryza sativa
transcript LOC_Os05g41900.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g41900.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G073535_T01 (Zea mays), 3'ss of exon 2
-----------------------------------------------------------------------------------aacagcgt-acatagcatatgtgatga-gctgtat---tgaaattcctatctgttct--ctggtgatatcctatctgtgttctgatgatgttgcattgt-tttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT
                                                                                   || ||  | ||  |  | || |||| |     ||     ||| ||| | |      |   |  |  | | || | ||  | |||||| | | ||||  | ||||||||||||||||||||||||||||||||||||||| || ||||| |||||| | ||||||||||||||||||||||||||||||||||||||||||||||||||
gtatggctacttctcaattcatgatgccatgtttttttttatattgtggttttacataatacatagcatcttccagcttcctgaagagtattactgaatagat-tgataacatcatacacacgaagttcatcttgaacatgcttattagtgttctgtttgcat-ctgatggtatggcatcatctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT
















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|88578112|gb|CI674745.1|CI674745
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88321737|gb|CI672879.1|CI672879
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88345430|gb|CI656088.1|CI656088
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88335109|gb|CI658116.1|CI658116
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88570561|gb|CI661934.1|CI661934
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88742013|gb|CI765521.1|CI765521
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88851628|gb|CI674830.1|CI674830
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88336029|gb|CI645630.1|CI645630
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|5004472|gb|AU069621.1|AU069621
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88762082|gb|CI771638.1|CI771638
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|95100761|gb|CI692473.1|CI692473
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|58586098|gb|CF984406.1|CF984406
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCGGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88317352|gb|CI628001.1|CI628001
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88340721|gb|CI657213.1|CI657213
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88308075|gb|CI647902.1|CI647902
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|58587137|gb|CF985445.1|CF985445
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88342123|gb|CI636481.1|CI636481
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88571462|gb|CI662835.1|CI662835
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|87017183|gb|CI301219.1|CI301219
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88419668|gb|CI686886.1|CI686886
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|33686145|gb|CF314384.1|CF314384
EST:     ACAAACAATTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88576901|gb|CI673440.1|CI673440
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|55431355|gb|CV728690.1|CV728690
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|58591899|gb|CF990207.1|CF990207
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|87017263|gb|CI301299.1|CI301299
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|95101042|gb|CI692770.1|CI692770
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
EST: gi|88580466|gb|CI697397.1|CI697397
EST:     ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA
genomic: ACAAACAAGTTTCATGTCTGATCTCGACGTTCAGCTTCCATCTGCCTTCGgtacgcttca ... gttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttctctggtgatatcctatctgtgttctgatgatgttgcattgttttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT
                           ttctgat  putative branch site (score: 3)
                                           ttgtttt  putative PPT
                                          attgtttt  TA-rich tract