Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtccatcaattttgaattgttacagtactgaatgagtcctcagagtgcatagtgctgttctctttttatgtgcctgatagttggtcctcttgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG

Basic information

species Zea mays
transcript GRMZM2G093574_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G093574_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g46490.1 (Oryza sativa), 3'ss of exon 1
---gtccatcaattttgaattgttacagtactgaatgagtcctcagagtgcatagtgctgttctctttttatgtg-cctgatagttggtcctcttgtatttcagTTGCTCTTGCGGTAGTTCCCCCA---ACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG
   |     ||| ||  |  |      |  || |  |||||      ||  ||     | |  || | |||||    ||||  |||    | | ||  ||  ||||||| ||| |||  || |  ||   || | || ||||||||||||||||||| |||  ||||||||||| ||||||||||||||
actgcatgccaagttctatctagagaggggct-agcgagtctgtttcgt-tattcca-tatattcgtattatgcaatctgactgtttcatc-catgccttgtagTTGCTGTTGTGGTGTTTTCTTCATCTACCGTCATCATGCAGAACGAGGAGGGTCAGATGGTGGACCTCTACGTCCCCAGGAAGTG
















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|211382688|gb|FL304273.1|FL304273
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211382693|gb|FL304278.1|FL304278
EST:     CCGTCGTCTCTCTG-AGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: CCGTCGTCT-GCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380050|gb|FL304259.1|FL304259
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGATA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|29946660|gb|CB816261.1|CB816261
EST:     CCGTCGTCTGCTGCGGACTCCGTCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: CCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211070260|gb|FL122119.1|FL122119
EST:     GCCGTCGTCTGCTGCGTACTCCGCCTCCAGTTTGGTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211382695|gb|FL304280.1|FL304280
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211197342|gb|FL304252.1|FL304252
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|33103011|gb|CF062971.1|CF062971
EST:     GTCGTCTGCTGCGGACTCCGCCTCCAGTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|30088384|gb|CB886589.1|CB886589
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|16925158|gb|BM078226.1|BM078226
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211197333|gb|FL304243.1|FL304243
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211067519|gb|FL122104.1|FL122104
EST:     TCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: TCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|87153808|gb|DY398597.1|DY398597
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380045|gb|FL304254.1|FL304254
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCAGTTTGGTCTGTTTCTTGCAAG                         TTGATCTTGTGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|18654613|gb|BM499418.1|BM499418
EST:     CTCTGTTTCTTGC-AG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: CTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|31909633|gb|CD651016.1|CD651016
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380051|gb|FL304260.1|FL304260
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCAGTTTGGTCTGTTTCTTGCAAG                         TTGATCTTGTGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|30307246|gb|CD001919.1|CD001919
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211197335|gb|FL304245.1|FL304245
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|33103153|gb|CF063113.1|CF063113
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCAGTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211382684|gb|FL304269.1|FL304269
EST:     GCCGTCGTCTGCTTCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGTTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211197338|gb|FL304248.1|FL304248
EST:     GCCGTCGTCTGCTGTGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|28873362|gb|CB329361.1|CB329361
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|29545037|gb|CB605215.1|CB605215
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|29543741|gb|CB604121.1|CB604121
EST:     TCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         -TGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: TCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380058|gb|FL304267.1|FL304267
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCAGTTTGGTCTGTTTCTTGCAAG                         TTGATCTTGTGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211382689|gb|FL304274.1|FL304274
EST:     GCCGTCGTCTGCTTTGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|18648950|gb|BM497769.1|BM497769
EST:     TTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: TTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|19821951|gb|BQ047975.1|BQ047975
EST:     CTCCATTTTGCTCTGTTTCTTGC-AG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: CTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|33102083|gb|CF062043.1|CF062043
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCAGTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211197337|gb|FL304247.1|FL304247
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380046|gb|FL304255.1|FL304255
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211385320|gb|FL304282.1|FL304282
EST:     GCCGTCGTCTGCTGTGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211382691|gb|FL304276.1|FL304276
EST:     GCCGTCGTCTGCTCCTTACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380056|gb|FL304265.1|FL304265
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCAGTTTGGTCTGTTTCTTGCAAG                         TTGATCTTGTGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|30031973|gb|CB833824.1|CB833824
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|19350656|gb|BM895188.1|BM895188
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|29577060|gb|CB617172.1|CB617172
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|29945625|gb|CB815735.1|CB815735
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211197341|gb|FL304251.1|FL304251
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211197334|gb|FL304244.1|FL304244
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211194939|gb|FL304239.1|FL304239
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|29947327|gb|CB816597.1|CB816597
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380053|gb|FL304262.1|FL304262
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211380049|gb|FL304258.1|FL304258
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCAGTTTGGTCTGTTTCTTGCAAG                         TTGATCTTGTGGTAGTTCCCCCAACTGTCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|29543416|gb|CB603812.1|CB603812
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|28987355|gb|CB351593.1|CB351593
EST:     CCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: CCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211194937|gb|FL304237.1|FL304237
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211385322|gb|FL304284.1|FL304284
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|31909161|gb|CD650780.1|CD650780
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|211382696|gb|FL304281.1|FL304281
EST:     GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
EST: gi|30088385|gb|CB886590.1|CB886590
EST:     GTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAG                         TTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA
genomic: GTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTA

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: 2459

TAATGTCCCGAACCCTAGAGGACAGCGCTTTCCTGTCCGACTCCCAGCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 2200

TAATGTCCCGAACCCTAGAGGACAGCGCTTTCCTGTCCGACTCCCAGCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 2489

TAATGTCCCGAACCCTAGAGGACAGCGCTTTCCTGTCCGACTCCCAGCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 1091

TAATGTCCCGAACCCTAGAGGACAGCGCTTTCCTGTCCGACTCCCAGCCGTCGTCTGCTGCGGACTCCGCCTCCATTTTGCTCTGTTTCTTGCAAGgtatcgtttc ... tgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatagtgctgttctctttttatgtgcctgatagttggtcctcttgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG
                          gcctgat  putative branch site (score: 1091)
                                       tcctcttgtatttc  putative PPT
               tctttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccatcaattttgaattgttacagtactgaatgagtcctcagagtgcatagtgctgttctctttttatgtgcctgatagttggtcctcttgtatttcagTTGCTCTTGCGGTAGTTCCCCCAACTGCCACCATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
gtccatc
- - - - - - tgaattg
- - - - - - - - - - - - - -ctgaatg
- - - - - - - - - - - - - - - - - - - - - - gtgcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtcct