Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccacctccaggctttcatcccaattaaacttcgagctgatctgacacccgttttgttgtgtggcgatgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA

Basic information

species Zea mays
transcript GRMZM2G043279_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043279_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g30730.1 (Oryza sativa), 3'ss of exon 1
gtaagccacctccaggctt-------------tcatcccaattaaacttcgagctgatctgacacccgttttg-ttgtgtggcg-atgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA
||||||| || ||     |             ||||| | ||||   || |  || |       || | | ||   || |   | |  | || ||||||| |||||||||||||||||||||||||||| |||| |||| |||||||| ||||||||||| || ||| | |||||||||||||||||||| |||||
gtaagcctccccctcctctccctctctccggttcatctcgattagttttagctctcaatcccttccggatctgaccgtttcttggacaaatgtcagCCCGGATCAAGGTGCACGAGCTCCGGGGGAAGAACAAGGCGGAGCTGCAGGCCCAGCTCAAGGACCTCAAGGCGGAGCTCTCCCTCCTCCGCGTCGCCAA

upper sequence: GRMZM2G043279_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g30050.1 (Oryza sativa), 3'ss of exon 1
gtaagccacctccaggctttcatcccaattaaacttcgagctgatctgacacccgttttgttgtgtggcgatgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA
|||||| ||  |    | ||| || |       | ||  |||   |||   |   | |    ||| |    ||    |||||||| ||||||||  ||||||| |||||||||| |||| |||| |||||||| ||||||||||| || ||| | |||||||||||||||||||| |||||
gtaagctacaacattccgttcttctct------cctcccgctcgcctg---cggatctaaccgtgcgtgtgtggt--gcagCCCGGATCAAGGTCGACGAGCTACGGGGGAAGAACAAGGCGGAGCTGCAGGCCCAGCTCAAGGACCTCAAGGCGGAGCTCTCCCTCCTCCGCGTCGCCAA
















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|29945190|gb|CB815515.1|CB815515
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGG-GCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186247|gb|FL001311.1|FL001311
EST:     CTGCCACCGCMGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29543365|gb|CB603761.1|CB603761
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|9566345|gb|BE475854.1|BE475854
EST:     GCCGACGCCGCGCCGCCGCAGCAACTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: GCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|14243104|gb|BG840769.2|BG840769
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCGCCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211326012|gb|FL295531.1|FL295531
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAACTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186245|gb|FL001309.1|FL001309
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|93014765|gb|EB640285.1|EB640285
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|60399359|gb|DN232173.1|DN232173
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|60357057|gb|DN224030.1|DN224030
EST:     CCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29543970|gb|CB604350.1|CB604350
EST:     CTGCCA-CGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGG-GCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29945476|gb|CB815658.1|CB815658
EST:     CTGCCACCG-CGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGG-GCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186249|gb|FL001313.1|FL001313
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29130441|gb|CB381145.1|CB381145
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|37425015|gb|CF650243.1|CF650243
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAA
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAA
EST: gi|31909231|gb|CD650815.1|CD650815
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186248|gb|FL001312.1|FL001312
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCAGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211188645|gb|FL001319.1|FL001319
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|27575911|gb|CA998605.1|CA998605
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186239|gb|FL001303.1|FL001303
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|60337004|gb|DN203977.1|DN203977
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211191050|gb|FL001336.1|FL001336
EST:     CTGCCACCGCGGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|91876361|gb|EB406318.1|EB406318
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|14242881|gb|BG840284.2|BG840284
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|149205088|gb|ES700684.1|ES700684
EST:     TGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: TGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|31997746|gb|CD661753.1|CD661753
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|14243953|gb|BG841678.2|BG841678
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|60348928|gb|DN215901.1|DN215901
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29945474|gb|CB815657.1|CB815657
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29543685|gb|CB604065.1|CB604065
EST:     GCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: GCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|14243636|gb|BG841353.2|BG841353
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211188648|gb|FL001322.1|FL001322
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|60351256|gb|DN218229.1|DN218229
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|26557740|gb|CA829975.1|CA829975
EST:     CGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCG-ATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186250|gb|FL001314.1|FL001314
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|60354838|gb|DN221811.1|DN221811
EST:     CTGCCACCGCGGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211191047|gb|FL001333.1|FL001333
EST:     CTGCCACCG-CGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211188649|gb|FL001323.1|FL001323
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186240|gb|FL001304.1|FL001304
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|60355130|gb|DN222103.1|DN222103
EST:     CTGCCACCGCGGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|28987063|gb|CB351446.1|CB351446
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211191049|gb|FL001335.1|FL001335
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|28931339|gb|CB334700.1|CB334700
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|76012855|gb|DT940025.1|DT940025
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|28568913|gb|CB280788.1|CB280788
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211188653|gb|FL001327.1|FL001327
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211191051|gb|FL001337.1|FL001337
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTGTGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|31997748|gb|CD661754.1|CD661754
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|9953338|gb|BE639921.1|BE639921
EST:     CCGCGCCGCCGCAGCAACTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|28983776|gb|BQ538782.2|BQ538782
EST:     CTGCCACCGCAGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186242|gb|FL001306.1|FL001306
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29130735|gb|CB381439.1|CB381439
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGG-GCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|29130231|gb|CB380935.1|CB380935
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211188657|gb|FL001331.1|FL001331
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
EST: gi|211186241|gb|FL001305.1|FL001305
EST:     CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGG                         CCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG
genomic: CTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGG

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: 49 (upstream exon), 49 (downstream exon)
Score: 634

CCGCTAACATTCCTCTTCCCCTCGCGCACCGCTCCTGAGTCCTGTCCACCCTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 239

CCGCTAACATTCCTCTTCCCCTCGCGCACCGCTCCTGAGTCCTGTCCACCCTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 156

CCGCTAACATTCCTCTTCCCCTCGCGCACCGCTCCTGAGTCCTGTCCACCCTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 311

CCGCTAACATTCCTCTTCCCCTCGCGCACCGCTCCTGAGTCCTGTCCACCCTGCCACCGCCGACGCCGCGCCGCCGCAGCAATTGTCACCGTCGCTATGGgtaagccacc ... tgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattaaacttcgagctgatctgacacccgttttgttgtgtggcgatgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA
                 atctgac  putative branch site (score: 311)
                             ttttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagccacctccaggctttcatcccaattaaacttcgagctgatctgacacccgttttgttgtgtggcgatgactggcagCCCGTATCAAGGTGCACGAGCTCCGGGGGAAGAGCAAGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC