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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaatgagattcaacctcagtaattacctttcaatggttacaatcactttagtttttatacagtgtactctaacaatccatatttacttgcacaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG

Basic information

species Zea mays
transcript GRMZM2G013600_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013600_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G51940.1 (Arabidopsis thaliana), 3'ss of exon 4
gaatgagattcaacctca--gtaattacctttcaatggttacaatcactttagtttttatacagtgtactctaac-aatccatatttacttgcacaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG
|  ||     | ||||    ||  ||   |||  |  ||||        | |  || |||   |   | |  | | |||  ||  | | ||| |    |  ||||||||||||||||||||||   ||| |||||||| ||||| || ||||| || ||||||||||| ||
gtgtgcttacctaccttcttgttgttggtttttga-agttatgtctcagtaaacttatat---gaacatttgagctaatttattatgatttgga----ttcagATTGCGATGAAGGAGCTTAGGCAGCGGAAGATACCATTCACTATTAGACGCTATCTACCTGATGGGAG

upper sequence: GRMZM2G013600_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv16s0100g00530.t01 (Vitis vinifera), 3'ss of exon 6
gaatgagattcaacctcagtaattaccttt-caatggttacaatcactttagtttttatacagtgtactctaacaatccatatttacttgcacaact---ctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG
  ||  ||  ||  |||| | ||| | | | |  |      |||  |   |||||     | |||     | ||     |||||   |||   || |    |||||||| |||||||| ||| | | ||| |||||||||||||| ||| | || ||||| |||||||||||
-gattggaagca--ctcattcatttcgtctgctgtaccactaattccacaagtttcccctctgtgcttcatgact-ctgatattcctttgtctaattgttttagATTGCAATGAAGGAACTTCGTGAGCGGAAGATACCCTTCACCATCCGCCGCTACCTGCCTGATGGAAG
















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|211199640|gb|FL066446.1|FL066446
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199633|gb|FL066439.1|FL066439
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199631|gb|FL066437.1|FL066437
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211133103|gb|FL066425.1|FL066425
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCAYKATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211202196|gb|FL066454.1|FL066454
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTANAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211204764|gb|FL066465.1|FL066465
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|149071159|gb|EE159556.2|EE159556
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211133109|gb|FL066431.1|FL066431
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199637|gb|FL066443.1|FL066443
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211306499|gb|FL467490.1|FL467490
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|148979713|gb|EE026786.2|EE026786
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|15426720|gb|BI542542.1|BI542542
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|15426730|gb|BI542552.1|BI542552
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAG
EST: gi|78107711|gb|DV526129.1|DV526129
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|60397946|gb|DN230762.1|DN230762
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|60399144|gb|DN231958.1|DN231958
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|32908904|gb|CF013717.1|CF013717
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|33771068|gb|CF273362.1|CF273362
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTANAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|78107710|gb|DV526128.1|DV526128
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211202197|gb|FL066455.1|FL066455
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGNAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|33093143|gb|CF053137.1|CF053137
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|71764952|gb|DR962889.1|DR962889
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|6636953|gb|AW261225.1|AW261225
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211132176|gb|FL066413.1|FL066413
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAWGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|18170633|gb|BM340473.1|BM340473
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211133100|gb|FL066422.1|FL066422
EST:     TGAATGCTCCAGCCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|29130382|gb|CB381086.1|CB381086
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTGGAG                         ATGGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAG
EST: gi|211202193|gb|FL066451.1|FL066451
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|60347864|gb|DN214837.1|DN214837
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199630|gb|FL066436.1|FL066436
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211131245|gb|FL066397.1|FL066397
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211133104|gb|FL066426.1|FL066426
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|60352879|gb|DN219852.1|DN219852
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211204765|gb|FL066466.1|FL066466
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAG
EST: gi|211202206|gb|FL066464.1|FL066464
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|60350323|gb|DN217296.1|DN217296
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|60357727|gb|DN224700.1|DN224700
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|93017559|gb|EB643079.1|EB643079
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211502196|gb|FK951723.1|FK951723
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|60396800|gb|DN229628.1|DN229628
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|149102013|gb|EE287504.2|EE287504
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|74235059|gb|DT642973.1|DT642973
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|84977260|gb|DW475682.1|DW475682
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199639|gb|FL066445.1|FL066445
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|149086215|gb|EE175755.2|EE175755
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211502195|gb|FK951722.1|FK951722
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211202192|gb|FL066450.1|FL066450
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199641|gb|FL066447.1|FL066447
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199629|gb|FL066435.1|FL066435
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|32855906|gb|CD995587.1|CD995587
EST:     TGAATGCTCCAGTCGTGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|6601607|gb|AW256153.1|AW256153
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|15426767|gb|BI542589.1|BI542589
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211132177|gb|FL066414.1|FL066414
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211132173|gb|FL066410.1|FL066410
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211132170|gb|FL066407.1|FL066407
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211377054|gb|FK951720.1|FK951720
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|33771081|gb|CF272742.1|CF272742
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTANAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|149071158|gb|EE159555.2|EE159555
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|37426097|gb|CF650799.1|CF650799
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211199634|gb|FL066440.1|FL066440
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|71764951|gb|DR962888.1|DR962888
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
EST: gi|211377055|gb|FK951721.1|FK951721
EST:     TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG                         ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG
genomic: TGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGG

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: 758

CATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG


Block sizes: 49 (upstream exon), 37 (downstream exon)
Score: 225

CATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG


Block sizes: 49 (upstream exon), 34 (downstream exon)
Score: 170

CATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG


Block sizes: 49 (upstream exon), 34 (downstream exon)
Score: 339

CATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttat ... acaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttagtttttatacagtgtactctaacaatccatatttacttgcacaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG
                     ctctaac  putative branch site (score: 339)
      tttttataca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaatgagattcaacctcagtaattacctttcaatggttacaatcactttagtttttatacagtgtactctaacaatccatatttacttgcacaactctagATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG