Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGTGCGCCAATCCGAGAGCTGGATCCGCCAGCAGCCCCCGGAGCAGATCTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgccaaacctagagttgcccatggtcttgacagtcttgaaatgttgtatttgtattgagaacatccacgtaaggtggcctaggaatgaaatagg...

Basic information

species Zea mays
transcript GRMZM2G015642_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015642_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g41250.2 (Oryza sativa), 5'ss of exon 1
TGGGTGCGCCAATCCGAGAGCTGGATCCGCCAGCAGCCCCCGGAGCAGATCTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgccaaacctagagttgcccatggtcttgacagtcttgaaatgttgtatttgtattgagaacatccacgtaaggtggcctaggaatgaaatagg----
|||||| | ||| ||||||| |||||||| |||||||| || |||||| | || ||||| | | ||||||||||||| ||  | ||| ||||  ||| |||||  ||  |||  |   |  |   ||  | ||    ||| ||    | | ||   |  |       ||| |  |     |||  || | | ||  ||||    
TGGGTGGGACAAGCCGAGAGGTGGATCCGGCAGCAGCCTCCCGAGCAGGTTTACGTCGCCGTCGCGGTGGTCGCCGTGACGGTTCTGTTGCTGGTCGCAGgtgatgtatcaattc---aactattca-agcctgcctagtttttttttttggttgcttcaaatcttgcatacgagagtactggtttatggaagagctaggaagc
















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|32843365|gb|CD983046.1|CD983046
EST:     GTCGCGGCCGA-GGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: GTCGCGGCC-ACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|71308849|gb|DR790674.1|DR790674
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|74245854|gb|DT653768.1|DT653768
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|94478009|gb|EB706967.1|EB706967
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGA
EST: gi|211350390|gb|FL140681.1|FL140681
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|71428602|gb|DR809652.1|DR809652
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|89252836|gb|DY624622.1|DY624622
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350383|gb|FL140674.1|FL140674
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350386|gb|FL140677.1|FL140677
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|78108643|gb|DV527061.1|DV527061
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|71764914|gb|DR962851.1|DR962851
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|32843363|gb|CD983044.1|CD983044
EST:     GTCGCGGCCGA-GGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: GTCGCGGCC-ACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|33099325|gb|CF059285.1|CF059285
EST:     GGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: GGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|76015966|gb|DT943136.1|DT943136
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|71312732|gb|DR792898.1|DR792898
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350395|gb|FL140686.1|FL140686
EST:     TATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTC
genomic: TATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTT-ATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTC
EST: gi|32914010|gb|CF018822.1|CF018822
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211352796|gb|FL140690.1|FL140690
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCAC-ATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|50331665|gb|CO526791.1|CO526791
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|94476999|gb|EB705957.1|EB705957
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|91054431|gb|EB164849.1|EB164849
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|31354626|gb|CD438983.1|CD438983
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|32843520|gb|CD983201.1|CD983201
EST:     GGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTG-TATCCGGGCTCA
genomic: GGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|71757403|gb|DR955340.1|DR955340
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350387|gb|FL140678.1|FL140678
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|33099323|gb|CF059283.1|CF059283
EST:     ACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: ACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|71313717|gb|DR793448.1|DR793448
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|74245303|gb|DT653217.1|DT653217
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|78076004|gb|DV504438.1|DV504438
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211352793|gb|FL140687.1|FL140687
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350385|gb|FL140676.1|FL140676
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350392|gb|FL140683.1|FL140683
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|149082785|gb|EE172007.2|EE172007
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|78111329|gb|DV529726.1|DV529726
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|24773783|gb|CA409037.1|CA409037
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGG
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGG
EST: gi|31355278|gb|CD439635.1|CD439635
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|31361274|gb|CD445631.1|CD445631
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|101399753|gb|EB821723.1|EB821723
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|76287924|gb|DV027492.1|DV027492
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350388|gb|FL140679.1|FL140679
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCA
EST: gi|32913988|gb|CF018800.1|CF018800
EST:     CTATGTCGCGGCCACGGTGGTCGTCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCGCCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|37420495|gb|CF647938.1|CF647938
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350384|gb|FL140675.1|FL140675
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|32843254|gb|CD982935.1|CD982935
EST:     GTCGCGGCCGA-GGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: GTCGCGGCC-ACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|71437117|gb|DR818167.1|DR818167
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|211350391|gb|FL140682.1|FL140682
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAA
EST: gi|211350394|gb|FL140685.1|FL140685
EST:     CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: CTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
EST: gi|32843310|gb|CD982991.1|CD982991
EST:     GTCGCGGCCGA-GGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAG                         CATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA
genomic: GTCGCGGCC-ACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCA

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: 152

TGGGTGCGCCAATCCGAGAGCTGGATCCGCCAGCAGCCCCCGGAGCAGATCTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCAGTGGCAGTGGCAAAACCACTATTTTCTACCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 141

TGGGTGCGCCAATCCGAGAGCTGGATCCGCCAGCAGCCCCCGGAGCAGATCTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCAGTGGCAGTGGCAAAACCACTATTTTCTACCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 109

TGGGTGCGCCAATCCGAGAGCTGGATCCGCCAGCAGCCCCCGGAGCAGATCTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCAGTGGCAGTGGCAAAACCACTATTTTCTACCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 158

TGGGTGCGCCAATCCGAGAGCTGGATCCGCCAGCAGCCCCCGGAGCAGATCTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgcc ... tttcctgcagCATCTTATCTGAAATCCTCTAAACCAAGCACCATAGTGCTATCCGGGCTCAGTGGCAGTGGCAAAACCACTATTTTCTACCAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGTGCGCCAATCCGAGAGCTGGATCCGCCAGCAGCCCCCGGAGCAGATCTATGTCGCGGCCACGGTGGTCGCCGTCACAATCCTGCTGCTTATCGTAGgtgcggtgccaaacctagagttgcccatggtcttgacagtcttgaaatgttgtatttgtattgagaacatccacgtaaggtggcctaggaatgaaatagg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgaaa