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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttatatgctccctttattcatgctcgttgtgtgtaaaagaaacattgtcatgtaaatgtcggtcttctgctcatttgcgataacacccacagta...

Basic information

species Zea mays
transcript GRMZM2G119773_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G119773_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g56970.1 (Oryza sativa), 5'ss of exon 2
GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttatatgctccctttattcatgctcgttgtgtgtaaaagaaacattgtcatgtaaatgtcggtcttctgctcatttgcgataacacccacagta------
||||||||||||||||| |||||||| |||||||| || ||| | ||||| ||||||||||| || || ||||||||||||||||| || || ||  |||||||| ||   || || ||     |      |       ||  | |     ||| ||||||||||      | | |    |    |     || |||  |      
GGCATCGAATTTTATGCCATAAACACAGATTCCCAGGCGCTTTTGAATTCGCAAGCGCAATACCCGCTACAAATTGGAGAGCAGTTAACTCGTGGACTAGgtaatatttgttgttctctg----ctgaactgacacaattatgaaacgttctgt-atgtaaatgttacatcttt-catgctgattagtctgcctacaagaacatat
















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|148970650|gb|EE021357.2|EE021357
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|149107184|gb|EE189070.2|EE189070
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|20508091|gb|BQ279894.1|BQ279894
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173947|gb|FL234237.1|FL234237
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173948|gb|FL234238.1|FL234238
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173941|gb|FL234231.1|FL234231
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|148940468|gb|EC885267.2|EC885267
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|31998233|gb|CD661991.1|CD661991
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|76923027|gb|DV169298.1|DV169298
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175619|gb|FL234245.1|FL234245
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|148941071|gb|EC885931.2|EC885931
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|149097959|gb|EE183902.2|EE183902
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|149097351|gb|EE183189.2|EE183189
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173951|gb|FL234241.1|FL234241
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|74240549|gb|DT648463.1|DT648463
EST:     CAAGCGCAATATCCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: CAAGCGCAATATCC-TCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|88755311|gb|DY539452.1|DY539452
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173939|gb|FL234229.1|FL234229
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATC
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATC
EST: gi|211175624|gb|FL234250.1|FL234250
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACCGGTGGAAATCCGAATTTGGGAGAKCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|74235120|gb|DT643034.1|DT643034
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173940|gb|FL234230.1|FL234230
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|101391145|gb|EB817506.1|EB817506
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173943|gb|FL234233.1|FL234233
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTSGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175625|gb|FL234251.1|FL234251
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173942|gb|FL234232.1|FL234232
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|60356845|gb|DN223818.1|DN223818
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|78078489|gb|DV506902.1|DV506902
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|149013929|gb|EE043427.2|EE043427
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|20507237|gb|BQ279544.1|BQ279544
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|71450106|gb|DR831156.1|DR831156
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175621|gb|FL234247.1|FL234247
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173952|gb|FL234242.1|FL234242
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAAT
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAAT
EST: gi|148964386|gb|EC905762.2|EC905762
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|71305508|gb|DR788897.1|DR788897
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175618|gb|FL234244.1|FL234244
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACC-GCGGCTTAG                         GTACCGGTGGAAATCCGAATTTGGGAGAGCA
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCA
EST: gi|148942194|gb|EC887199.2|EC887199
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175617|gb|FL234243.1|FL234243
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211173945|gb|FL234235.1|FL234235
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175626|gb|FL234252.1|FL234252
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACCGGTGGAAATCCGAATTTNGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|71431993|gb|DR813043.1|DR813043
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|148971012|gb|EE021841.2|EE021841
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175622|gb|FL234248.1|FL234248
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAG
EST: gi|211175623|gb|FL234249.1|FL234249
EST:     ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG                         GTACTGGTGGAAA
genomic: ACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAA

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: 168

GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAGAAACCATAGCCACTGCCCTGAGGGATTCAGATCTTGTCTTCATAACAGC


Block sizes: 40 (upstream exon), 49 (downstream exon)
Score: 55

GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAGAAACCATAGCCACTGCCCTGAGGGATTCAGATCTTGTCTTCATAACAGC


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

GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAGAAACCATAGCCACTGCCCTGAGGGATTCAGATCTTGTCTTCATAACAGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 81

GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttat ... acatgcacagGTGCCGGTGGAAATCCGAATTTGGGAGAGCAGGCTGCTGAGGAATCAAGAGAAACCATAGCCACTGCCCTGAGGGATTCAGATCTTGTCTTCATAACAGC


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAGgtaatgttatatgctccctttattcatgctcgttgtgtgtaaaagaaacattgtcatgtaaatgtcggtcttctgctcatttgcgataacacccacagta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaaa