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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttgttatctgatgtagtcagtatgttcctcttagcattttcccctctttgccaagtgtcgctcataggtggtatcctcttgacactcgaattgtgctaactcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTTCTTCAAGGCCTTCTTCGGTATGATCCTGATGCGCGCCTAAAGGCACGTG

Basic information

species Oryza sativa
transcript LOC_Os01g62080.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g62080.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G386991_T01 (Zea mays), 3'ss of exon 11
gtactttgttatctgatgtagtcagtatgttcctcttagcattttcccctctttgccaagtgtcg-ctcataggtggtatc-ctcttgaca---ctcgaattgtgctaactcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTTCTTCAAGGCCTTCTTCGGTATGATCCTGATGCGCGCCTAAAGGCACGTG
|||||||  | ||||||||| ||    |  ||   |  ||||     |   || ||||| || |  ||  ||  ||||||  || |||| |    || |||  |   ||  ||||||||| || || |||||||||||||||||||||||||||||||| || |||||||||||||| |||||||||||||||||| ||| |||||| || |||| ||
gtactttcctctctgatgtactc----taatcaattacgcat-----cagtttggccaactgacatcttttaaatggtatgacttttgaaaaagttctaatcattgcaatccatgcagAACCTTGTGATGCAACATGTTGATCATTCTGCTGGAGATCTAATTGATCTTCTTCAAGGACTTCTTCGGTATGATCCTAATGAGCGCCTGAAAGCACATG
















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|27577533|gb|CB000228.1|CB000228
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|86419537|gb|CI054338.1|CI054338
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|88278121|gb|CI399121.1|CI399121
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|109712124|gb|CI104732.1|CI104732
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCT-
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|88268204|gb|CI378139.1|CI378139
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|88278123|gb|CI399123.1|CI399123
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|88902914|gb|CI088452.1|CI088452
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|86434684|gb|CI105917.1|CI105917
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|27576166|gb|CA998860.1|CA998860
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|86484027|gb|CI126660.1|CI126660
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
EST: gi|86598138|gb|CI278528.1|CI278528
EST:     CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAG                         AATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT
genomic: CTGCCTCACGGGAAAGCCTGAAGGCAGTCTGGAAATTGCCTCGTCTGCAGgtactttgtt ... actcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgtcgctcataggtggtatcctcttgacactcgaattgtgctaactcatgcagAATCTGGTAATGCAACATGTTGATCATTCTGCTGGAGATCTTATAGATCTTCTTCAAGGCCTTCTTCGGTATGATCCTGATGCGCGCCTAAAGGCACGTG
                                        tgctaac  putative branch site (score: 1)