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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcccacgagattgttaccattttgatgaattaggtgaatctaaattgagcttaaaatgttatcagtgttctcatgatcactctgcacatcactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTCATTTTACAGCTTCAAGACAAACACATACAAATTGAACTTCCTAGAGAGC

Basic information

species Oryza sativa
transcript LOC_Os01g33020.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g33020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G010146_T02 (Zea mays), 3'ss of exon 1
-tgcccacgagattgttac-cattttgatgaattaggtgaatctaaattgagcttaa-aatgttatcagtgttctcatgatcactct-gcacatcactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTCATTTTACAGCTTCAAGACAAACACATACAAATTGAACTTCCTAGAGAGC
   || |  |  |  ||   |    ||   |||    ||| |||   || || | |  ||| || | | | | ||| ||  |  | |  || ||||  |||||| ||||||||||| |||||||| |||||||||||||| ||||| ||||| || ||||| |||||||||||||||||||||||| |||||||    ||||||
gaacctagaacttccttgtaccgagtggcaaatgttttgagtct---ttaagatgactaattttcttattttcctcttggcctttttcacatatcaa-atgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTCGTTTTATAGCTTCAAGACAAACACATACAAACTGAACTTTACGGAGAGC

upper sequence: LOC_Os01g33020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G039373_T01 (Zea mays), 3'ss of exon 1
-tgcccacgagattgt-taccattttgatgaattaggtgaatctaaattgagcttaaaatgttatcagtgttctcatgatcactctgcacatcacta-tgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTCATTTTACAGCTTCAAGACAAACACATACAAATTGAACTTCCTAGAGAGC
       | | || || |||||  | |   ||||   | | |||  |    |||||  ||  | | | | | ||| |||    | | |||||  | | ||||| || |||||||| |||||||| |||||||| ||||| ||||| |||||||| ||||| |||||||||||||||||||||||| |||||||| | ||||||
ggagaacctatatcgtgtaccaagt-ggcaaattttcttagtctttaagatgctta--attctcttattttcctcttgactttttttcacatatcaaatgcagGGCTGAAAAGGGAAATCTTGGAGTGCCACTGCTGCCAGGCCAAGGTTGCTCGTTTTATAGCTTCAAGACAAACACATACAAACTGAACTTCATGGAGAGC

upper sequence: LOC_Os01g33020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G010146_T03 (Zea mays), 3'ss of exon 1
tgcccacgagattgttac-cattttgatgaattaggtgaatctaaattgagcttaa-aatgttatcagtgttctcatgatcactct-gcacatcactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTCATTTTACAGCTTCAAGACAAACACATACAAATTGAACTTCCTAGAGAGC-----
     |  |  |  ||   |    ||   |||    ||| |||   || || | |  ||| || | | | | ||| ||  |  | |  || ||||  |||||| ||||||||||| |||||||| |||||||||||||| ||||| ||||| || ||||| |||||||||||||||||||||||| |||||||    ||||||     
----tagaacttccttgtaccgagtggcaaatgttttgagtct---ttaagatgactaattttcttattttcctcttggcctttttcacatatcaa-atgcagggcagAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTCGTTTTATAGCTTCAAGACAAACACATACAAACTGAACTTTACGGAGAGCCCTTC

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|88832255|gb|CI017489.1|CI017489
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|88988903|gb|CI040635.1|CI040635
EST:     CTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: CTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|58589387|gb|CF987695.1|CF987695
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGGCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|88827220|gb|CI777785.1|CI777785
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTG
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTG
EST: gi|86520090|gb|CI160296.1|CI160296
EST:     CCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCAAGGGTTGCTC
genomic: CCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|87028415|gb|CI263757.1|CI263757
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|88338781|gb|CI660552.1|CI660552
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGGCGGGCCAGGGTTGC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGC
EST: gi|88307587|gb|CI643437.1|CI643437
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGC
EST: gi|88312539|gb|CI585062.1|CI585062
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|88717054|gb|CI740564.1|CI740564
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGG
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGG
EST: gi|88832263|gb|CI017497.1|CI017497
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|66923539|gb|CX110387.1|CX110387
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGG
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGG
EST: gi|88664990|gb|CI706268.1|CI706268
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGG
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGG
EST: gi|58658081|gb|CK046761.1|CK046761
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|9865647|gb|AU101397.1|AU101397
EST:     GGCCTCCTCTTCTCCCTCCG-TCTTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|218485437|gb|FG946454.1|FG946454
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGCTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|88719463|gb|CI742973.1|CI742973
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCAC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCAC
EST: gi|88302386|gb|CI668232.1|CI668232
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|89199179|gb|CI255445.1|CI255445
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|218488359|gb|FG945110.1|FG945110
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|88982282|gb|CI027859.1|CI027859
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|88717143|gb|CI740653.1|CI740653
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCACGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
EST: gi|58599380|gb|CK009908.1|CK009908
EST:     GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCAC                         AGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC
genomic: GGCCTCCTCTTCTCCCTCCGCTCCTTCACCGCCAAGATCGATCCCACCACgtactacgcc ... cactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgagcttaaaatgttatcagtgttctcatgatcactctgcacatcactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTCATTTTACAGCTTCAAGACAAACACATACAAATTGAACTTCCTAGAGAGC
      ttaaaatgttatca  TA-rich tract