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 5'  3'   		2  
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 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtgggttcagtgaatgtttatgaattgtgaatcctttccctctaaattcaccttgcctttgctgaaattctctcatatcacctaatattggtg...

Basic information

species Zea mays
transcript GRMZM2G108228_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108228_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g59130.1 (Oryza sativa), 5'ss of exon 2
CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtgggttcagt---gaatgtttatgaattgtgaatcctttccctctaaat-tcaccttgcctttgctgaaattctc-tcatatcacctaatattggtg
||| || || |||||||| || ||||| || ||||| || |||||||| || |  || |||  ||||| |||||| ||||||||||| ||||||||||||||||  | ||  | || |    |||   ||  |   || | |||| |  |  | | | |  |||   |  ||||| | ||| | |||| |    |  |||     
CTGCGCTTCAGTTTGTACGACTTGGAGAGACATGTGCAAAGATATTGTCAGGAACCCTGAATTTTGTGGAAAGCTTACATTTCCAGTGTCTCTTAAGCAGgtaaccactgaatccaatagcaaataactacaatacgtaattcctattacaatcattattccctgagcggtgctggagttcccatcatgttcttttgtat-----

upper sequence: GRMZM2G108228_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0055g00460.t01 (Vitis vinifera), 5'ss of exon 3
CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtgggttcagtgaatgtttatgaattgtgaatcctttccctctaaattcaccttgcctttgctgaa-attctctcatatcacctaatattggtg-
 || ||  |||||||     | ||||||  ||||||||| || |||||||||||||||||   |||||| || || || |||||||| || || |||||||||  |  |   ||   |     ||  |   || |   |  |     ||   | | |  || |        || | |   |  | ||   |  ||||     
ATGCGCTGCTGTTTGCCGGTCATGGAGGACTATGTGTAAAGAAATTGTTAGAAGTCCAGAGTTTTGTGCCAAACTTACCTTTCCAGTGTCCCTGAAGCAGgta--ggatccatttgctctgctttatttgttttttttttttccggttccgtaatgaagttacgggcaacaaatactaaattctttccatttgtattttcag
















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|86470102|gb|DY236472.1|DY236472
EST:     AAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAGTGTTTCATAAAAGGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|89250696|gb|DY622482.1|DY622482
EST:     GAAGTCCAAAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGAACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|71318795|gb|DR796159.1|DR796159
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|71445229|gb|DR826279.1|DR826279
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|91049386|gb|EB159804.1|EB159804
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|50332914|gb|CO528040.1|CO528040
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|71765600|gb|DR963537.1|DR963537
EST:     GAAGTCCAGAATATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|76288559|gb|DV028127.1|DV028127
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|148970343|gb|EE021209.2|EE021209
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|31359011|gb|CD443368.1|CD443368
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|149084543|gb|EE174011.2|EE174011
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|31611888|gb|CD568510.1|CD568510
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACG
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACG
EST: gi|148960184|gb|EE153436.2|EE153436
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|76021266|gb|DT948436.1|DT948436
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|78111619|gb|DV530016.1|DV530016
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|149090300|gb|EE179604.2|EE179604
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|71442832|gb|DR823882.1|DR823882
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|89249225|gb|DY621011.1|DY621011
EST:     AAGTCCAGAACATTGTGCAAAGCTCACATTTTCCCGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: AAGTCCAGAACATTGTGCAAAGCTCACATTT-CCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|71766358|gb|DR964295.1|DR964295
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|93283817|gb|EB676081.1|EB676081
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|211422962|gb|FL360561.1|FL360561
EST:     GA-GTCCAGAACATTGTGCNAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTTATCCAATGGTTTCATAAAA-GGGACAA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATG-TTTCATAAAAAGGGACAA
EST: gi|148941245|gb|EC886139.2|EC886139
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|148940679|gb|EC885493.2|EC885493
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|50327951|gb|CO523077.1|CO523077
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|89759572|gb|DY688358.1|DY688358
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|211428128|gb|FL358025.1|FL358025
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|148959531|gb|EE010853.2|EE010853
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|78111743|gb|DV530140.1|DV530140
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|78123301|gb|DV541685.1|DV541685
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAG
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAG
EST: gi|50332231|gb|CO527357.1|CO527357
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|91049274|gb|EB159692.1|EB159692
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|78113977|gb|DV532366.1|DV532366
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|101387605|gb|EB815817.1|EB815817
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|74236483|gb|DT644397.1|DT644397
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGG
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGG
EST: gi|71312297|gb|DR792672.1|DR792672
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|78079710|gb|DV508122.1|DV508122
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|149009205|gb|EE041318.2|EE041318
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|91050137|gb|EB160555.1|EB160555
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|149082440|gb|EE171627.2|EE171627
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAG                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
EST: gi|91871229|gb|EB401309.1|EB401309
EST:     GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAA                         CCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA
genomic: GAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCA

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 4 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 88

CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCAAAGCTAACGTACCGGCTCTACTTGTCCCTTAGCTCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 85

CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCAAAGCTAACGTACCGGCTCTACTTGTCCCTTAGCTCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 72

CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCAAAGCTAACGTACCGGCTCTACTTGTCCCTTAGCTCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 137

CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtg ... tcttgttcagCCTGGACCCCGAGACGGGGTAATCCAATGTTTCATAAAAAGGGACAAATCAAAGCTAACGTACCGGCTCTACTTGTCCCTTAGCTCTG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGTGCATCTGTTTGTACAACCTGGAGGGATATGTGTAAGGATATTGTTAGAAGTCCAGAACATTGTGCAAAGCTCACATTTCCAGTATCTCTTAAGCAGgtaatgagtgggttcagtgaatgtttatgaattgtgaatcctttccctctaaattcaccttgcctttgctgaaattctctcatatcacctaatattggtg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA