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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCAGAAGGTTGAGCCTGTGATTATGGATGAAAGCATGATGAAGGCATGTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggacattccatctgccttccttagttgtttaagcattcatgtgccaaagcatttctggtactcatgctgttcctttgtag

Basic information

species Zea mays
transcript GRMZM2G014720_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G014720_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g61500.1 (Oryza sativa), 5'ss of exon 2
AGAGCAGAAGGTTGAGCCTGTGATTATGGATGAAAGCATGATGAAGGCATGTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggacattccatctgc--cttccttagttgt---ttaagcattcatgtgccaaagcatttctggtactcatgctgttcctttgtag----
|||||||| ||  ||||| || ||||||||||| |||||||||||||| |||| ||||||||  ||||| |||| ||||||||| |  || ||||| |||||||||| | | |   ||| |  | || |   ||     ||||   ||| | |  |       |  |     |  || | ||  | | |      
AGAGCAGAGGGCCGAGCCAGTAATTATGGATGAGAGCATGATGAAGGCTTGTGAGGCTGTTGGCCGTGTAAGAGCTGAAGTTGACAGACTCTCTGCCAAGgtgaaggaataatgtttctccagcctcttccattaaacattaactcttcttatatcttgatgctgatacggtttttgtttttgttctattaccag
















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|211319553|gb|FL297392.1|FL297392
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|149095905|gb|EE181566.2|EE181566
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|78119666|gb|DV538050.1|DV538050
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211319554|gb|FL297393.1|FL297393
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTNGAGGATAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTT-GAGGATAA
EST: gi|76293992|gb|DV033560.1|DV033560
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211317534|gb|FL297379.1|FL297379
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAG
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAG
EST: gi|60358815|gb|DN225788.1|DN225788
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|149109381|gb|EE293275.2|EE293275
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211131747|gb|FL468280.1|FL468280
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|71327900|gb|DR800583.1|DR800583
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211317529|gb|FL297385.1|FL297385
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGG
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGG
EST: gi|60672683|gb|DN475379.1|DN475379
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211319562|gb|FL297401.1|FL297401
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGGAGGG
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGG-AGGG
EST: gi|211319550|gb|FL297389.1|FL297389
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGT
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGT
EST: gi|76016521|gb|DT943691.1|DT943691
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|149109382|gb|EE190170.2|EE190170
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACT
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACT
EST: gi|50331732|gb|CO526858.1|CO526858
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211459135|gb|FL297405.1|FL297405
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGA
EST: gi|94472248|gb|EB701206.1|EB701206
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAGGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211317524|gb|FL297380.1|FL297380
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211319561|gb|FL297400.1|FL297400
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTG
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTG
EST: gi|40303540|gb|CK347927.1|CK347927
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211540693|gb|FL445717.1|FL445717
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|86468929|gb|DY235299.1|DY235299
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211459132|gb|FL297402.1|FL297402
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATNAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211319549|gb|FL297388.1|FL297388
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGANGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|76293991|gb|DV033559.1|DV033559
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|50331731|gb|CO526857.1|CO526857
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|67023400|gb|CO452149.1|CO452149
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|60338688|gb|DN205661.1|DN205661
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|71311567|gb|DR792155.1|DR792155
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|91874630|gb|EB404587.1|EB404587
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGTTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|71440484|gb|DR821534.1|DR821534
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|91056183|gb|EB166601.1|EB166601
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211317523|gb|FL297375.1|FL297375
EST:     TGCGGCTGTTGCTCGTGTTAGAGTTGAAGGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTSGAGAAGAATGTACTAGGAGGGAGAAA
genomic: TGCGGCTGTTGCTCGTGTTAGAGTTGAAG-TTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAA
EST: gi|93014140|gb|EB639660.1|EB639660
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGTTAAG                         GGGTGTGACTGGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211459133|gb|FL297403.1|FL297403
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAA
EST: gi|211317520|gb|FL297372.1|FL297372
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATG
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATG
EST: gi|149095906|gb|EE181567.2|EE181567
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|101386296|gb|EB815168.1|EB815168
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|149010032|gb|EE154205.2|EE154205
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTTTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|71440483|gb|DR821533.1|DR821533
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|211317525|gb|FL297381.1|FL297381
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
EST: gi|78119667|gb|DV538051.1|DV538051
EST:     GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAG                         GTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA
genomic: GTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAA

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: 46 (upstream exon), 47 (downstream exon)
Score: 162

AGAGCAGAAGGTTGAGCCTGTGATTATGGATGAAAGCATGATGAAGGCATGTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAAGAATTTGTTGTCTTGACGGAGCTGCTTATGATGCAGCTGCTGAAACTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 250

AGAGCAGAAGGTTGAGCCTGTGATTATGGATGAAAGCATGATGAAGGCATGTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAAGAATTTGTTGTCTTGACGGAGCTGCTTATGATGCAGCTGCTGAAACTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 149

AGAGCAGAAGGTTGAGCCTGTGATTATGGATGAAAGCATGATGAAGGCATGTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAAGAATTTGTTGTCTTGACGGAGCTGCTTATGATGCAGCTGCTGAAACTCG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 551

AGAGCAGAAGGTTGAGCCTGTGATTATGGATGAAAGCATGATGAAGGCATGTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggac ... tcctttgtagGTGTGTGACTTGGAGAAGAATGTACTAGGAGGGAGAAAGGTTGAGGATAAAGAATTTGTTGTCTTGACGGAGCTGCTTATGATGCAGCTGCTGAAACTCG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGCAGAAGGTTGAGCCTGTGATTATGGATGAAAGCATGATGAAGGCATGTGCGGCTGTTGCTCGTGTTAGAGTTGAAGTTGATAAGCTGTCTGCTAAGgtgaagggacattccatctgccttccttagttgtttaagcattcatgtgccaaagcatttctggtactcatgctgttcctttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG