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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgccgcattatactctcttctatctaccaacacaccagctgttagacattatctcacagtttacatgcgaattgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTACAGTGCAGACTTCGGCAAAGAGTAAGGTGCAAGATTCTGATCCTGTATTC

Basic information

species Oryza sativa
transcript LOC_Os02g10640.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G165817_T01 (Zea mays), 3'ss of exon 9
gtgcgccgcattatactc---tcttctatctaccaacacaccagctgttagacattatctcacagtttacatgcgaattgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTACAGTGCAGACTTCGGCAAAGAGTAA-GGTGCAAGATTCTGATCCTGTATTC
|||| |    |   ||||   |||| | |        | |   |  |||| |||||  | | ||   | | ||| | || || |||||||||| |||||||| || || || || ||||||||||| || || || ||||||||||| || |||||||||||| | ||| | || | ||| |      |
gtgcactatctcgcactccaatcttgtgtaccttcgaatagttgtggttaaacattgacactcaaaatccctgcaacttttatttcagGCTGTGAGGAAGCTAAATGATGCAAAAAAGCTGGAATCGAGTGCGCATTACAGTGCAGATTTTGGCAAAGAGTAATGATGCTA-ATGCCGATGCAACGGAC

upper sequence: LOC_Os02g10640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: EFJ28962 (Selaginella moellendorffii), 3'ss of exon 9
gtgcgccgcattatactctcttctatctaccaacacaccagctgttagacattatc-tcacagtttacatgcgaattgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTACAGTGCAGACTTCGGCAAAGAGTAAGGTGCAAGATTCTGATCCTGTATTC-
                                    |   || |||  | |||||| |     ||  ||   |  | |   | ||||| || |||||||| ||||||||||||||||||||||| ||||| ||||| || |||||||| ||||| || |||||  ||   || |  |||| ||| | 
----------------------------------gtaaatgccgttc-atattatccttttcattctcaaatgtgt-gacttccagGCCGTGAGGAAGCTAAACGACGCCAAGAAGCTGGAATCAAGCGCTCACTATAGCGCAGACTTTGGCAAGGACTAAGG-ACATTTTTTTCTTCCTTTATGCT

upper sequence: LOC_Os02g10640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: EFJ13668 (Selaginella moellendorffii), 3'ss of exon 9
gtgcgccgcattatactctcttctatctaccaacacaccagctgttagacattatc-tcacagtttacatgcgaattgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTACAGTGCAGACTTCGGCAAAGAGTAAGGTGCAAGATTCTGATCCTGTATTC-
                                    |   || |||  | |||||| |     ||  ||   |  | |   | ||||| || |||||||| ||||||||||||||||||||||| ||||| ||||| || |||||||| ||||| || |||||   |   || |  |||| ||| | 
----------------------------------gtaaatgccgttc-atattatccttttcattctcaaatgtgt-gacttccagGCCGTGAGGAAGCTAAACGACGCCAAGAAGCTGGAATCAAGCGCTCACTATAGCGCAGACTTTGGCAAGGACTAAGGAA-ATTTTTTTCTTCCTTTATGCT

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|88907358|gb|CI090152.1|CI090152
EST:     GTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: GTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|89194901|gb|CI003365.1|CI003365
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|58608391|gb|CK036424.1|CK036424
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88219945|gb|CI219505.1|CI219505
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCTAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86872652|gb|CI323055.1|CI323055
EST:     CTGCAATTCGTGCTGAACGGGACTACG-TGTCCATGAGGACTTCATGAAG                         GCTGTCA-GAAACTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88506489|gb|CI433995.1|CI433995
EST:     CCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86539950|gb|CI180156.1|CI180156
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|218483516|gb|FG958130.1|FG958130
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|218493541|gb|FG956814.1|FG956814
EST:     TGCAATTCCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGAC
genomic: TGCAATTC-GTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGAC
EST: gi|88271532|gb|CI387585.1|CI387585
EST:     GTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCT-GAATCCAGCGCCCACTAC
genomic: GTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|55411926|gb|CV724302.1|CV724302
EST:     GGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: GGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86535774|gb|CI175980.1|CI175980
EST:     GAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: GAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|33688885|gb|CF317124.1|CF317124
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|109712761|gb|CI105369.1|CI105369
EST:     ATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: ATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|396941346|gb|HO188555.1|HO188555
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86491295|gb|CI133928.1|CI133928
EST:     GACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: GACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88991579|gb|CI019757.1|CI019757
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGGCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|25778007|gb|CA752759.1|CA752759
EST:     CTGCAATTCGCGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86429455|gb|CI076136.1|CI076136
EST:     CCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|8955808|gb|BE229613.1|BE229613
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGRAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|58687304|gb|CK075991.1|CK075991
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88987917|gb|CI017980.1|CI017980
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86477906|gb|CI120539.1|CI120539
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|218501848|gb|FG946073.1|FG946073
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|89195758|gb|CI007177.1|CI007177
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|89164953|gb|CI102041.1|CI102041
EST:     CCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|25778017|gb|CA752769.1|CA752769
EST:     CTGCAATTCGCGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86545816|gb|CI186022.1|CI186022
EST:     CTGCAATTCGTGCTGAACGGGAGTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|55411915|gb|CV724291.1|CV724291
EST:     ACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: ACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|58687840|gb|CK076527.1|CK076527
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|33795428|gb|CF323584.1|CF323584
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|218486211|gb|FG960168.1|FG960168
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|89195854|gb|CI007273.1|CI007273
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88519953|gb|CI446505.1|CI446505
EST:     CATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGGTGGAATCCAGCGCCCACTAC
genomic: CATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88248699|gb|CI248548.1|CI248548
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGTACGACTCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|163925709|gb|EG714545.1|EG714545
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|3759665|gb|C96923.1|C96923
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88218123|gb|CI217972.1|CI217972
EST:     TCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: TCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|27577669|gb|CB000364.1|CB000364
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86260454|gb|CI066327.1|CI066327
EST:     TCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: TCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|58587300|gb|CF985608.1|CF985608
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|55408414|gb|CV720790.1|CV720790
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|58587845|gb|CF986153.1|CF986153
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86538913|gb|CI179119.1|CI179119
EST:     GTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: GTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|86484725|gb|CI127358.1|CI127358
EST:     CATGAGGACTTCATGAAG                         NCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCTAGCGCCCACTAC
genomic: CATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|89198083|gb|CI117561.1|CI117561
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|38480216|gb|CF964305.1|CF964305
EST:     CTGCAATTCGTGCTGAGGGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|38479537|gb|CF963642.1|CF963642
EST:     CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: CTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88248340|gb|CI248189.1|CI248189
EST:     TGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: TGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
EST: gi|88964974|gb|CI097842.1|CI097842
EST:     TGCAATTCGTGCTGAACGGGACTACGTTTGTCCATGAGGACTTCATGAAG                         GCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC
genomic: TGCAATTCGTGCTGAACGGGACTACG-TTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTAC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 71 (downstream exon)
Score: 35

GGCTTCAATGGGGCTGATCTTCGCAACGTCTGCACTGAAGCGGGTATGGCTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgca ... tgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTACAGTGCAGACTTCGGCAAAGAGTAAGGTGCAAGATTCTGATCCTGTATTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacacaccagctgttagacattatctcacagtttacatgcgaattgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTACAGTGCAGACTTCGGCAAAGAGTAAGGTGCAAGATTCTGATCCTGTATTC
                       atctcac  putative branch site (score: 35)
                  acattat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgccgcattatactctcttctatctaccaacacaccagctgttagacattatctcacagtttacatgcgaattgtacttcagGCTGTCAGGAAGCTGAACGACGCCAAGAAGCTGGAATCCAGCGCCCACTACAGTGCAGACTTCGGCAAAGAGTAAGGTGCAAGATTCTGATCCTGTATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA