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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGCCGAGCTCTACACGCAGGCAATCGAGGCCAGCCCCGCCACCGCCGAGCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatctctcgcaatctcccccttcctccccttccttcgattagattggtttgccgtgtgtgcggtggtggtggtggtggtctggggagtctgtgt...

Basic information

species Oryza sativa
transcript LOC_Os01g43540.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43540.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G105019_T01 (Zea mays), 5'ss of exon 1
GCCGCCGAGCTCTACACGCAGGCAATCGAGGCCAGCCCCGCCACCGCCGAGCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatctctcgcaatctcccccttcctccccttccttcgattagattggtttgccgtgtgtgcggtggtggtggtggtg-gtctggggagtctg-tgt----
||| ||||||||||||  ||||| ||||| ||| | |||||||||||||| ||||| ||||||||||||||||| || |||||||| ||||||||||||||||           |   | ||||||  || |  | |  |||  |   | |  |  |    | || |  |  |  || | ||| | |  | | ||||| | |    
GCCACCGAGCTCTACAGCCAGGCCATCGACGCCGGGCCCGCCACCGCCGACCTCTATGCCGACCGCGCCCAGGCGCACATCAAGCTCGGCAACTACACTGgta-----cgggcagtgctttccccccaccccatccttgttctctcctactactccgatagg-gttcaattttattgcttgtgcgccacgagggtctggtatagcg

upper sequence: LOC_Os01g43540.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G149704_T02 (Zea mays), 5'ss of exon 1
GCCGCCGAGCTCTACACGCAGGCAATCGAGGCCAGCCCCGCCACCGCCGAGCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatctctcgcaatctcccccttcctccccttccttcgattagattggtttgccgtgtgtgc-ggtg-gtggtggtggtggtctggggagtctgtgt---------
|||||||| |||||||||||||| ||||| ||| | |||||||| ||||| ||||||||||||||||||||||| || |||||||| |||||||||||||||         |  ||| |  | |||  || |||| |||  | |   |||| | ||||  |||| || |  | |||  |   || ||  |  |||   | ||         
GCCGCCGAACTCTACACGCAGGCCATCGACGCCGGGCCCGCCACTGCCGATCTCTACGCCGACCGCGCCCAGGCGCACATCAAGCTCGGCAACTACACTGgtg--------cgggcagtgcctccc--cccccccctcccccaacctgattcgattgct-tgtgcgctgacgtgtgaggacagtagttcgacgagcgagcgtgggtgttgt
















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|88351723|gb|CI617448.1|CI617448
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88391756|gb|CI603275.1|CI603275
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88372467|gb|CI610790.1|CI610790
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88406262|gb|CI596389.1|CI596389
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88403836|gb|CI611491.1|CI611491
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|29661448|gb|CB657723.1|CB657723
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|58586137|gb|CF984445.1|CF984445
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAAGGACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACACATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88721089|gb|CI744388.1|CI744388
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88359446|gb|CI620977.1|CI620977
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88399100|gb|CI603767.1|CI603767
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88394529|gb|CI605870.1|CI605870
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88392765|gb|CI623996.1|CI623996
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88761660|gb|CI771216.1|CI771216
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88314415|gb|CI604899.1|CI604899
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88366470|gb|CI610615.1|CI610615
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88362624|gb|CI608773.1|CI608773
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTAAACTG                         AGGCTGTAGCTGATGCTAAAAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|29625917|gb|CB630928.1|CB630928
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACACATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88386386|gb|CI573003.1|CI573003
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88398004|gb|CI585507.1|CI585507
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|29660561|gb|CB656836.1|CB656836
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88399716|gb|CI583450.1|CI583450
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88717989|gb|CI741499.1|CI741499
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88742943|gb|CI766451.1|CI766451
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|3061193|gb|C91825.1|C91825
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTNGATGCTAACAA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCT-GATGCTAACAA
EST: gi|163920381|gb|EG714468.1|EG714468
EST:     AAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: AAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88695854|gb|CI737431.1|CI737431
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|2312755|gb|C28910.1|C28910
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88426989|gb|CI601950.1|CI601950
EST:     TCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACC-ATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|286480|gb|D15287.1|D15287
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|12404713|gb|AU166314.1|AU166314
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88364728|gb|CI612543.1|CI612543
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88423764|gb|CI617116.1|CI617116
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|29659289|gb|CB655564.1|CB655564
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88371307|gb|CI600155.1|CI600155
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGAACCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88763618|gb|CI773065.1|CI773065
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|29669129|gb|CB665404.1|CB665404
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|29658976|gb|CB655251.1|CB655251
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88357631|gb|CI623685.1|CI623685
EST:     GCTCTACGCCGGCCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAAATTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|88316637|gb|CI622883.1|CI622883
EST:     GCTCTAAGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGTTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|2309664|gb|C25819.1|C25819
EST:     GCTCTACGNCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGNCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
EST: gi|33678214|gb|CF306453.1|CF306453
EST:     GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTG                         AGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA
genomic: GCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACA

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: 57 (upstream exon), 70 (downstream exon)
Score: 63

GCCGCCGAGCTCTACACGCAGGCAATCGAGGCCAGCCCCGCCACCGCCGAGCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatc ... tgtcttgcagAGGCTGTAGCTGATGCTAACAAGGCCATTGAACTTGACCCATCAATGCACAAGGCTTATCTTCGTAAAGG




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCGCCGAGCTCTACACGCAGGCAATCGAGGCCAGCCCCGCCACCGCCGAGCTCTACGCCGACCGCGCCCAGGCCCATATCAAGCTAGGCAACTACACTGgtaatccatctctcgcaatctcccccttcctccccttccttcgattagattggtttgccgtgtgtgcggtggtggtggtggtggtctggggagtctgtgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcggtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtggtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggggag