Skip to another splice site:
1  
 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

...ctggatggtagggtgcaaatgatttaactgtgttaaatgttaattactgtatgttcttcattgtgtcctaagtcctgataattgaactatacgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG

Basic information

species Zea mays
transcript GRMZM2G119773_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G119773_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g56970.2 (Oryza sativa), 3'ss of exon 1
ctggatggtagggtgcaaatg-atttaactgtgttaaatgttaattactgtatgttcttcatt--gtgtcctaagtcctgataattgaactatacgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG
             ||| ||   | |  | ||| |||      |||| | | |||  | |  ||   | ||  || |  | | |  || ||| ||| |||||||||||||||||||||||| |||||||| |||||||| || ||| | ||||| ||||||||||| || || ||||||||||||||||| || || ||  |||
--catctacgaaatgcgaacccagtgcattgt-ttagcctgaaattccagcatgaccgttgtttgttttctcaaatagtaacatctggactgtacaatttcagGGCATCGAATTTTATGCCATAAACACAGATTCCCAGGCGCTTTTGAATTCGCAAGCGCAATACCCGCTACAAATTGGAGAGCAGTTAACTCGTGGACTAG
















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|211173949|gb|FL234239.1|FL234239
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|148970650|gb|EE021357.2|EE021357
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|149107184|gb|EE189070.2|EE189070
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|20508091|gb|BQ279894.1|BQ279894
EST:     GTGTAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173947|gb|FL234237.1|FL234237
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173938|gb|FL234228.1|FL234228
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173941|gb|FL234231.1|FL234231
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|148940468|gb|EC885267.2|EC885267
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175620|gb|FL234246.1|FL234246
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|31998233|gb|CD661991.1|CD661991
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|76923027|gb|DV169298.1|DV169298
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175619|gb|FL234245.1|FL234245
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|148941071|gb|EC885931.2|EC885931
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|149097959|gb|EE183902.2|EE183902
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|149097351|gb|EE183189.2|EE183189
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173951|gb|FL234241.1|FL234241
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|74240549|gb|DT648463.1|DT648463
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCCAAGCCCTTATTAATTC
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCC-AAGCCCTTATTAATTC
EST: gi|88755311|gb|DY539452.1|DY539452
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173939|gb|FL234229.1|FL234229
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175624|gb|FL234250.1|FL234250
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173950|gb|FL234240.1|FL234240
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|74235120|gb|DT643034.1|DT643034
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173940|gb|FL234230.1|FL234230
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|101391145|gb|EB817506.1|EB817506
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173943|gb|FL234233.1|FL234233
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173942|gb|FL234232.1|FL234232
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|60356845|gb|DN223818.1|DN223818
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|78078489|gb|DV506902.1|DV506902
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|149013929|gb|EE043427.2|EE043427
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|20507237|gb|BQ279544.1|BQ279544
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|71450106|gb|DR831156.1|DR831156
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175621|gb|FL234247.1|FL234247
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173952|gb|FL234242.1|FL234242
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|148964386|gb|EC905762.2|EC905762
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|71305508|gb|DR788897.1|DR788897
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175618|gb|FL234244.1|FL234244
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|148942194|gb|EC887199.2|EC887199
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175617|gb|FL234243.1|FL234243
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173945|gb|FL234235.1|FL234235
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175626|gb|FL234252.1|FL234252
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|71431993|gb|DR813043.1|DR813043
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211173944|gb|FL234234.1|FL234234
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCC
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCC
EST: gi|148971012|gb|EE021841.2|EE021841
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175622|gb|FL234248.1|FL234248
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGTATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
EST: gi|211175623|gb|FL234249.1|FL234249
EST:     GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAG                         GGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA
genomic: GCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCA

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: 112

GTGCTCGTTCGCGCCGGTGGAGACGGCCCGGATAAAGGTGGTGGGCGTTGGCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 42

GTGCTCGTTCGCGCCGGTGGAGACGGCCCGGATAAAGGTGGTGGGCGTTGGCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 24

GTGCTCGTTCGCGCCGGTGGAGACGGCCCGGATAAAGGTGGTGGGCGTTGGCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG


Block sizes: 45 (upstream exon), 48 (downstream exon)
Score: 33

GTGCTCGTTCGCGCCGGTGGAGACGGCCCGGATAAAGGTGGTGGGCGTTGGCGGAGGCGGCAACAACGCCGTCAACCGCATGATCGGCAGCGGCCTCCAGgtagtggcgg ... acgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtatgttcttcattgtgtcctaagtcctgataattgaactatacgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG
                           tcctgat  putative branch site (score: 33)
                                ataattgaactata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctggatggtagggtgcaaatgatttaactgtgttaaatgttaattactgtatgttcttcattgtgtcctaagtcctgataattgaactatacgatttcagGGCATCGAATTTTATGCTATAAACACCGATTCCCAAGCCCTTATTAATTCACAAGCGCAATATCCTCTGCAAATTGGAGAGCAGTTGACCCGCGGCTTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
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