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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattgctttattgcttttaaaagtacattgttttgttgtatgaagttgccaacaacatcattcatgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG

Basic information

species Oryza sativa
transcript LOC_Os05g03820.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03820.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G020096_T01 (Zea mays), 3'ss of exon 7
gtgattgctttattgcttttaa--aagtacattgtt----ttgttgtatgaagttgccaacaacatcattcatgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG
||  || ||| || ||  || |  || |||||  ||    |  ||   || |||| | |||| |||    | | |||||||||||||| ||||| ||||| || ||||||||  |||||||||| |||||||| || ||  ||||||||||
gtatttacttgatagcccttcaggaaatacataattaatttcattacctgcagttactaaca-catttacccttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG

upper sequence: LOC_Os05g03820.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G111579_T01 (Zea mays), 3'ss of exon 7
gtgattgctttattgcttttaa------aagtacattgttttgttgtatgaagttgccaacaacatcattcatgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG
|   |  ||| || ||  ||||      |  ||| |  |||  || | || ||||   ||||   | |  | | |||||||||||||| ||||| |||||||| || || ||  |||||||||| |||||||| || || |||||||||||
gcattaacttgatagcccttaagtacatagatacttaatttcattttctgcagttattaacacagttaccctt-atctgcagCCATATCTGGACAGATACTGATAATAATCGTGCAGGGATGCTCCCTTTTGTCTTTGACGACTCATTTGG

upper sequence: LOC_Os05g03820.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 8
----gtgattgctttattgcttttaaaagtacat-tgttttgttgtatgaagttgccaacaacatcattcatgatct----gcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG
     ||   ||| |   ||  |||             ||||   | | ||| ||||     ||   |||||   ||     |||||||||||||||||||||||||||  | ||| |||| ||||| |||||||| || |||||||| |||||
gtacatggaagctctcacgcagttatttcctttcacactttgcattgttaaggtgccttatccacttttcatatgcttggaacagCCATATTTGGACTGATACTGACAAGGATCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGG

upper sequence: LOC_Os05g03820.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 8
----gtgattgctttattgcttttaaaagtacat-tgttttgttgtatgaagttgccaacaacatcattcatgatct----gcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG
     ||   | | || |||  | |             ||||   | | ||| ||||     ||   |||||   ||     |||||||||||||||||||||||| ||  ||||| |||| ||||| |||||||| || |||||||| |||||
gtacatggaagttctaatgcagtcatttcctttcacactttgcattgttaaggtgccttatccacttttcatatgcttggaacagCCATATTTGGACTGATACTGATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGG

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|33796283|gb|CF324008.1|CF324008
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTC
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTC
EST: gi|55411431|gb|CV723807.1|CV723807
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
EST: gi|58658531|gb|CK047211.1|CK047211
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAAACGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
EST: gi|218498945|gb|FG948066.1|FG948066
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
EST: gi|58663415|gb|CK052101.1|CK052101
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
EST: gi|218500233|gb|FG945122.1|FG945122
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
EST: gi|33676123|gb|CF304362.1|CF304362
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
EST: gi|29679436|gb|CB675711.1|CB675711
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
EST: gi|29677970|gb|CB674245.1|CB674245
EST:     AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAG                         CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT
genomic: AATTCTCCCTTCAAAGAAGGAAAACCAAATGGGTATCTTAGCTTAAGAAGgtgattgctt ... tgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagtacattgttttgttgtatgaagttgccaacaacatcattcatgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG
       attgtttt  TA-rich tract