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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttgtcagaactaagttttccattttaatagcatttcatactgattgatctaacattaaattatttattggccttgtgacatgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCCCTGGATGCCGATGCAACAGGTCTACCAAGGGCTCATGGGCTTTCTTCAT

Basic information

species Oryza sativa
transcript LOC_Os01g69130.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69130.2 (Oryza sativa), 3'ss of exon 19
lower sequence: GRMZM2G180335_T01 (Zea mays), 3'ss of exon 19
gtatgttttgtcagaactaagttttccattttaatagcatttcatactgattgatct----aacattaaattatttattggccttgtg---acatgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGC------TATTCCCTGGATGCCGATGCAACAGGTCTACCAAGGGCTCATGGGCTTTCTTCAT
|||||||||  |||  ||    ||   |  || | |    ||   ||   || ||||    |||| ||  ||||    |  | ||       ||   | |||||||||||||||||||||||||| || ||  |||| ||||| ||       || ||||| ||| | ||||| |  |||||||||||||||||||||||||      
gtatgttttcgcagttctttaattcgtacattcagaagtcttggcaccacttcatctcaccaacactagcttatcacctcacgtttcttctgcaccatgcagACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGATACTCCCTCGATTCTGATGCGATTGGTCTACCAAGGGCTCATGGGCTTT------

upper sequence: LOC_Os01g69130.2 (Oryza sativa), 3'ss of exon 19
lower sequence: GRMZM2G180335_T01 (Zea mays), 3'ss of exon 19
gtatgttttgtcagaactaagttttccattttaatagcatttcatactgattgatct----aacattaaattatttattggccttgtg---acatgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGC------TATTCCCTGGATGCCGATGCAACAGGTCTACCAAGGGCTCATGGGCTTTCTTCAT
|||||||||  |||  ||    ||   |  || | |    ||   ||   || ||||    |||| ||  ||||    |  | ||       ||   | |||||||||||||||||||||||||| || ||  |||| ||||| ||       || ||||| ||| | ||||| |  |||||||||||||||||||||||||      
gtatgttttcgcagttctttaattcgtacattcagaagtcttggcaccacttcatctcaccaacactagcttatcacctcacgtttcttctgcaccatgcagACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGATACTCCCTCGATTCTGATGCGATTGGTCTACCAAGGGCTCATGGGCTTT------
















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|325494121|gb|JG458645.1|JG458645
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAG
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAG
EST: gi|38476196|gb|CF960329.1|CF960329
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|88200886|gb|CI198738.1|CI198738
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|86479683|gb|CI122316.1|CI122316
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTTC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|86478751|gb|CI121384.1|CI121384
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|25806989|gb|CA762950.1|CA762950
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|88962547|gb|CI097699.1|CI097699
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|29625093|gb|CB630104.1|CB630104
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|58683601|gb|CK072288.1|CK072288
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|29625094|gb|CB630105.1|CB630105
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
EST: gi|88840611|gb|CI080065.1|CI080065
EST:     AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAG                         ACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC
genomic: AGAGGAGGCAAATACGTGACACCCTCAAGGTCCTTCAGCAAGCATACAAGgtatgttttg ... catgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatactgattgatctaacattaaattatttattggccttgtgacatgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGCTATTCCCTGGATGCCGATGCAACAGGTCTACCAAGGGCTCATGGGCTTTCTTCAT
             atctaac  putative branch site (score: 2)
       tgattgatctaacatt  TA-rich tract