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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataagcatccctcctgttttgcctaccgtaccatggaaatgccaactgcttcttggtgttagattacttatccatgttcgatccgacctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGACCAAGA

Basic information

species Oryza sativa
transcript LOC_Os03g63400.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g63400.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G023242_T05 (Zea mays), 3'ss of exon 3
gtataa-gcatccctcctgtt----ttgcctaccgtaccatg-----gaaatgccaactgcttcttggtgttagattacttatcc-atgttcgat--ccgacctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGACCAAGA
||||    |  |  | ||||      || | || ||  ||||     |||  |       | |  || | |    |  |||| |  |||||   |   |  ||  ||||||||||||||||||||| ||||||||||||||||||||||| || |||||||| || |
gtatgccacccctgttctgtcgttactggccactgttacatgtttccgaagcgggggaatcctggtgttatcgactggcttagctgatgttttgtgctctgccgatgcagTGCAAGCTTCCATCGCAGCAAACACATGGGTGGTCAGTGGATCTCCACAGACGAAAA

upper sequence: LOC_Os03g63400.1 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S213_68V6.1 (Physcomitrella patens), 3'ss of exon 2
--gtataagcatccctcctgttttgcctaccgt-accatggaaatgccaactgcttc--ttggtgttagattacttatccatgttcgatccgacctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGACCAAGA
  |        |   | | |    |   |   | | | ||||  |  ||| ||  |       |||| |||||   | | || |||    |    | ||||||||||||||| |||||||| ||||| ||||| || |||||  |  ||  ||| ||||
ctgccgcttttttagtgcagaaacgttaaaattcatcttggagctctcaattgtattagcaaatgtt-gattagagaccaattttcttctctgttt-tgcagTGCAAGCTTCTATCGCCGCCAACACTTGGGTCGTTAGTGGACCATCATCGACTAAGA

upper sequence: LOC_Os03g63400.1 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S479_10V6.1 (Physcomitrella patens), 3'ss of exon 3
gtataagcatccctcctgtt------ttgccta----ccgtaccatggaaatgccaactgcttcttggtgttagattacttatcc------atgttcgatccgacctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGACCAAGA-------------------------------------------
|||| |   ||| | |||||      ||  | |    |   | |    |||  | |  |  ||   |  ||      |  ||         |  ||   |      |||||||||||||| ||||| ||||| ||||| |||||||| || ||  |  | || || ||||                                           
gtattactttccgtgctgttagtccgttatccatgacctaaaacgacaaaacacaagtttatttgggaagtacaggcatctaaatgaaaatacctttattgacgtgtgtgcagTGCAAGCCTCCATTGCCGCCAACACGTGGGTGGTGAGCGGACCTTCTCAAACGAAGAAGCTCCAAGACATCTTGCCTAGTATCATCAACCAGTTAGGACC

upper sequence: LOC_Os03g63400.1 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S359_31V6.2 (Physcomitrella patens), 3'ss of exon 2
------gtataagcatccctcctgttttgcctaccgtaccatggaaatgccaactgcttcttggtgttag-attacttatccatgttcgatccgacctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGACCAAGA
      || |    |   |||   || |   ||   ||   ||||      || || |||||    ||   |||| |||||  | ||| |        |||||||||||||||||||||| || ||||||||||| || |||||  |  ||||||||||||
tttgcagtttttttaggactcacattgttgatatgatat--tggagtgcttaattgtttctttccatttttattaattatc-gtcttc-acttatttggtgcagTGCAAGCTTCCATCGCTGCCAACACATGGGTTGTAAGTGGACCATCACAGACCAAGA

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|88205126|gb|CI204975.1|CI204975
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|88209060|gb|CI208909.1|CI208909
EST:     AACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: AACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|38477612|gb|CF961745.1|CF961745
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|55409416|gb|CV721792.1|CV721792
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|8528376|gb|AU093191.1|AU093191
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|86824271|gb|CI260854.1|CI260854
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|86823386|gb|CI256364.1|CI256364
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|87015910|gb|CI279662.1|CI279662
EST:     TCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: TCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|425823|gb|D22501.1|D22501
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGGCGGANACACATGGGTGGTCAGT
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGT
EST: gi|86594523|gb|CI253422.1|CI253422
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAAA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|426706|gb|D22776.1|D22776
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|88977134|gb|CI024871.1|CI024871
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|3760604|gb|C97858.1|C97858
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|58597162|gb|CK007690.1|CK007690
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|86489014|gb|CI131647.1|CI131647
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|55440624|gb|CV733623.1|CV733623
EST:     ATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: ATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|86542346|gb|CI182552.1|CI182552
EST:     GGTCTACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
EST: gi|86821488|gb|CI266864.1|CI266864
EST:     GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAG                         TGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA
genomic: GGTCAACATCTTCAAGGATGATCTCGTCATCCAGTTCGTCAATCCCAAAGgtataagcat ... acctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccaactgcttcttggtgttagattacttatccatgttcgatccgacctgtgcagTGCAAGCTTCCATCGCCGCAAACACATGGGTGGTCAGTGGCTCCCCACAGACCAAGA
                      attacttat  TA-rich tract