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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgtgcatgttttacatactatctggcccagttctgttctgttcattgctgaacgatgcatcttccagtccttttgtattaggtttttagctgttcaccagtcgttgggagagttttatcttacatggtacattgatcaaaatctaccaattgcag

Basic information

species Zea mays
transcript GRMZM2G012160_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G012160_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g58890.4 (Oryza sativa), 5'ss of exon 1
GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgtgcatgttttacatact-atctggcccagttctgttctgttcattgctgaacgatgcatcttccagtccttttgtat-taggtttttagctgttcaccagtcgttgggagagttttatcttacatggtacattgatcaaaatctaccaattgcag
|  ||||||||||| |||||||||||||||||||| ||||||  | ||||||||||||| ||||| ||||||||||| || |   |||| |  |||||||||  |    ||  || |||| ||||    |   |  | || |   ||||||  |||   || ||| ||     | |   | | ||| ||  | | ||  | |  |                                                           
GCCAAGAAGCTCTATGAAGCTAAGGTCTGGGAGAAACCATGGATGGACTTCAAGGAGCTCCAGGAGTTCAAGCCTGTCGATGCCAGTGCAAATGCCTAAGgtctagacatgtttggtttagatacccgccaaacaaaattttcacctgttccatgcattaccatgtat-----aatatatatatatatatatatatatatatata-----------------------------------------------------------

upper sequence: GRMZM2G012160_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S66_209V6.2 (Physcomitrella patens), 5'ss of exon 2
GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgtgcatgttttacatactatctggcccagttctgttct-gttcattgctgaacgatgcatcttccagtccttttg--tattaggtttttagctgttcaccagtcgttgggagagttttatcttacatggtacattgatcaaaatctaccaattgcag
                     ||||| |||| ||||||||||||||| |||||| || || |||| ||||||||    ||  | |  |      | |  | | || ||| |  |      || || |  | |    | | ||  || | ||  | ||    ||  ||| || |  | | |||   | |   | | ||        | ||| ||     |  ||| |  | | |                                
---------------------AAGGTGTGGGTGAAGCCATGGGAGAATTTCAAGAAGTTGGAGGACTTCAAGCCCAAAGAGCAAGAAGTGTTTACTTCTGCT-GACTTGGGTGT------CAGACCAGgttgatacgatgtgccctcgctccctactttttgactcatatttctatgcgtttcactgtcgagctctttaacaacaaacagccg-----aacgttcttcccttc--------------------------------
















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|211426509|gb|FL062852.1|FL062852
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211426515|gb|FL062858.1|FL062858
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|13249729|gb|BG360634.1|BG360634
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|20802982|gb|BQ294032.1|BQ294032
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|78110749|gb|DV529147.1|DV529147
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|78110748|gb|DV529146.1|DV529146
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211245419|gb|FL062770.1|FL062770
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211238705|gb|FL062724.1|FL062724
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAG
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAG
EST: gi|211048577|gb|FL062611.1|FL062611
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAA
EST: gi|76923573|gb|DV169554.1|DV169554
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|18167602|gb|BM337442.1|BM337442
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|37419198|gb|CF647276.1|CF647276
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTC
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTC
EST: gi|91876051|gb|EB406008.1|EB406008
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|18165921|gb|BM335760.1|BM335760
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|18177993|gb|BM379203.1|BM379203
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211054498|gb|FL062652.1|FL062652
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|78106335|gb|DV524753.1|DV524753
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|116828894|gb|EC862020.1|EC862020
EST:     AAGGAGCTTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATATCTCCTTATC-ATGTGCGAGCCTGAAGCTCAAAG
genomic: AAGGAGCT-GCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAG
EST: gi|13381874|gb|BG458549.1|BG458549
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211060441|gb|FL062677.1|FL062677
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|91053835|gb|EB164253.1|EB164253
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|47962403|gb|CN845112.1|CN845112
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211238699|gb|FL062718.1|FL062718
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTAGAAGAGTGTGCTAGCGCCTAAG                         GATCTCTCCTTCACCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211048581|gb|FL062615.1|FL062615
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211247638|gb|FL062772.1|FL062772
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|24934375|gb|CA452593.1|CA452593
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|16922783|gb|BM075775.1|BM075775
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211243171|gb|FL062743.1|FL062743
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTG
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTG
EST: gi|211240934|gb|FL062727.1|FL062727
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGA-
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211252104|gb|FL062803.1|FL062803
EST:     CAAGGAGCTGCAGGAATTCAGGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|71445980|gb|DR827030.1|DR827030
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|92088076|gb|EB484307.1|EB484307
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCCTGAAAGCTCAAAGCAAAGTT
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCC-TGAA-GCTCAAAGCAAAGTT
EST: gi|13198526|gb|BG354365.1|BG354365
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211057464|gb|FL062660.1|FL062660
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTKCGAGCCTKAAGCTCAAAGCAAAGTTTCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|211054493|gb|FL062647.1|FL062647
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|18173590|gb|BM348978.1|BM348978
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
EST: gi|116814597|gb|EC857182.1|EC857182
EST:     AAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCCTAAG                         GATCTCTCCTTCTCCAATGTGCGAGCCTGAAGCTCAAAAGCAAAGGTTTG
genomic: AAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCC-TAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCA-TGTGCGAGCCTGAAGCTCAAA-GCAAAG-TT-G
EST: gi|18172875|gb|BM348263.1|BM348263
EST:     CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAG                         GATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA
genomic: CAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAA

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: 270

GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAATAAGGAGCCACCTCCCAACATGCTAGACCATGCTCCCTTGTGTAATTTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 7644

GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAATAAGGAGCCACCTCCCAACATGCTAGACCATGCTCCCTTGTGTAATTTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 2816

GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAATAAGGAGCCACCTCCCAACATGCTAGACCATGCTCCCTTGTGTAATTTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1066

GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgt ... ccaattgcagGATCTCTCCTTCTCCATGTGCGAGCCTGAAGCTCAAAGCAAAGTTGCAGAATAAGGAGCCACCTCCCAACATGCTAGACCATGCTCCCTTGTGTAATTTC


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAAGAAGCTCTACGAAGCTAAGGTCTGGGAGAAGCCATGGGAGAACTTCAAGGAGCTGCAGGAATTCAAGCCTGTTGAAGAGGGTGCTAGCGCCTAAGgtagatttgtgcatgttttacatactatctggcccagttctgttctgttcattgctgaacgatgcatcttccagtccttttgtattaggtttttagctgttcaccagtcgttgggagagttttatcttacatggtacattgatcaaaatctaccaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG