Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
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 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcctgtttccgttgttcggtgagttctcaaaactcttgacgctatgtatctgtatctgtgttgattaacatttgcagtatgtttttttcttggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC

Basic information

species Zea mays
transcript GRMZM2G087105_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G087105_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g07970.1 (Oryza sativa), 3'ss of exon 1
tcctgtttccgttgttcggtgagttctcaaaactcttgacgctatgtatctgtatctgtgttgattaacatttgcagtatgtttttttcttggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC
| | |       |     ||||    || ||| |    | || || |||| ||   | |    |||   |  | |    | |  | | ||||| | ||||||||||  | ||||| ||||||||||| ||||||||| | |||||||| ||||| |||| ||||||| ||||| | ||||||| |||| |||| ||||||
tgccgccagatcttccttgtgaaaattccaaagttaccaagcaatttatcagttgttattaaaatttgtacgtacttattctactctgcttggtttatagGAATAGAGTTATTGACACAGCTCATCTGATGAGGGATCTATATTACAAGAGGAATCCACAAGCAAGAAGTTCAGGGTCTAATACTTCAATAAAGAGTTAC
















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|211350211|gb|FL361418.1|FL361418
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211010892|gb|FL365567.1|FL365567
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGC-GCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|26557289|gb|CA829524.1|CA829524
EST:     TGGACGACCACTTCGAACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: TGGACGACCACTTCG-ACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211402413|gb|FL355655.1|FL355655
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211098611|gb|FL331610.1|FL331610
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGC-GCTCATS                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|148986029|gb|EE029876.2|EE029876
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTC---                         --AT-GGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211528602|gb|FL330639.1|FL330639
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211115522|gb|FL311584.1|FL311584
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211136034|gb|FL319344.1|FL319344
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211004064|gb|FL319215.1|FL319215
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211372759|gb|FL332788.1|FL332788
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATA
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATA
EST: gi|148991227|gb|EE032692.2|EE032692
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211322614|gb|FL345962.1|FL345962
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|78085484|gb|DV513877.1|DV513877
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211520527|gb|FL366338.1|FL366338
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211359036|gb|FL316883.1|FL316883
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211016018|gb|FL351155.1|FL351155
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTTTTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|37422877|gb|CF649154.1|CF649154
EST:     CCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211108624|gb|FL325821.1|FL325821
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|76021370|gb|DT948540.1|DT948540
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211399613|gb|FL346426.1|FL346426
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211517612|gb|FL357266.1|FL357266
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211218803|gb|FL348984.1|FL348984
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|6021302|gb|AW066230.1|AW066230
EST:     GGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: GGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211134525|gb|FL362066.1|FL362066
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211131870|gb|FL366543.1|FL366543
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211303809|gb|FL321304.1|FL321304
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211091699|gb|FL353091.1|FL353091
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|71441001|gb|DR822051.1|DR822051
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211510662|gb|FL361516.1|FL361516
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211046537|gb|FL332034.1|FL332034
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGC-GCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211406309|gb|FL312305.1|FL312305
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTWTTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211231251|gb|FL350932.1|FL350932
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211258210|gb|FL352266.1|FL352266
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGC-GCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211475490|gb|FL344064.1|FL344064
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211267657|gb|FL340177.1|FL340177
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211222348|gb|FL320272.1|FL320272
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211135362|gb|FL349820.1|FL349820
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211327342|gb|FL364060.1|FL364060
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211469607|gb|FL315632.1|FL315632
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|74238280|gb|DT646194.1|DT646194
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|78107838|gb|DV526256.1|DV526256
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|50337804|gb|CO532930.1|CO532930
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
EST: gi|211337796|gb|FL343836.1|FL343836
EST:     CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATG                         GAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG
genomic: CTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAG

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), 48 (downstream exon)
Score: 217

TTACGGCGCAGTCGCTGAACGACGACATCCTCCGGTCCGTCTTCTCCCGGCTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 103

TTACGGCGCAGTCGCTGAACGACGACATCCTCCGGTCCGTCTTCTCCCGGCTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 89

TTACGGCGCAGTCGCTGAACGACGACATCCTCCGGTCCGTCTTCTCCCGGCTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 134

TTACGGCGCAGTCGCTGAACGACGACATCCTCCGGTCCGTCTTCTCCCGGCTGGACGACCACTTCGACCTCGCCCGCTGCTCCGCCGTCTGCGGCTCATGgtcactttct ... tggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatctgtatctgtgttgattaacatttgcagtatgtttttttcttggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC
                 gattaac  putative branch site (score: 134)
                                    tttttttcttggctc  putative PPT
                                tatgtttttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcctgtttccgttgttcggtgagttctcaaaactcttgacgctatgtatctgtatctgtgttgattaacatttgcagtatgtttttttcttggctcatagGAATAGGATAATTGAAACAGCTCATCTCATGAGGGATATGTATTACAAAAGGAACCCACCAGCAAGAGGTTCAAGCTCTAATATTTCAGTAAAAAGTTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- ctgtttc
- - - - - - - - - - - - - - - - - - - - - tatgtat
- - - - - - - - - - - - - - - - - - - - - - - - -ctgtatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgat
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