Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcacctagtcttttagaccatctgatgcaagattttttatgactattatgtgttctaaaattttaatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG

Basic information

species Zea mays
transcript GRMZM2G130398_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130398_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g59600.1 (Oryza sativa), 3'ss of exon 5
gtaagcacctagtcttttagaccatctgatgcaagattttttatgactattatgtgttctaaaattttaatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG
||| |||| ||  ||| ||| |||| |    ||  |||||  |||| |||       |||||   | | ||| || ||||||||||| |||||||||||||| || |||||||||||||||||||| || || ||||||||||| || || ||||||||||||||
gtacgcacataaacttgtaggccatgtag-acataatttt--atgattatc-----ctctaatgctgtgatgtactagGGTCTATGGTGAACCCATTTCTGTAAAAGAATTGGCTGATCGTGTGGCTAGCTACGTTCATCTTTGTACACTCTACTGGTGGCTCAG

upper sequence: GRMZM2G130398_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA05G14330.1 (Glycine max), 3'ss of exon 4
-----gtaagcacctagtcttttagaccatctgatgcaa--gattttttatgactattatgtgttctaaaattttaatg--gac-------------cagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG
     | ||| |    |   | |  ||  |  | |  ||   | | |||     |||  || |    ||||| || |||  | |             ||| || ||||| ||||| ||| |||| |||||| | ||||| |||||||| |||||||| || || || ||||| || |||||||||||
gatcagcaagtataaggatctcttaactcttaggtttaattaaatgtttgcttgtatcttgagaagaaaaatgtttatgctggcttgtgtttcttttcagCGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAGTTATGTGCACCTCTGTACGCTATATTGGTGGCTCAG

upper sequence: GRMZM2G130398_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G17920.1 (Glycine max), 3'ss of exon 4
---------gtaagcacctagt--cttttagacc--atctgatgcaagattttttat--------gactattatgtgttctaaaattt-taatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG
          |||| |  |  |  || | ||     ||   |||   | ||| || |        ||  | | | | | ||    | | |       ||| || ||||| ||||| ||| |||| |||||| | ||||| |||||||| |||||||| || || || ||||| || |||||||||||
gaccaaagtataaggatttcttaactctgaggtttaattaaatgtttgctttcttcttttaagaagaaaaatgtttatgctggcttatgtttcttttcagTGTATATGGCGAACCAATTCCTGTTAAGGAACTTGCTGACCGTGTGGCTAGTTATGTGCACCTCTGTACGCTATATTGGTGGCTCAG

upper sequence: GRMZM2G130398_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT2G27020.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------gtaagcacctagtcttttagaccatctgatgcaagattttttatgactatt--atgtgttctaa----aattttaatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG
                ||| |  |    |  ||   ||       ||||  | |||||  |||| |   |     ||||     | || | ||     || || ||||| ||  |  |  ||||||||||| |  |||| ||||| ||||||||||| ||||| || || ||||| |||||||||||
tataagatgtcaatgtgtatgttctcctttcttcctacatggctttgcataactttttccgactgtgtaaccaactctaccttcacttgtgataatttagTGTTTATGGCGATGCTGTACCTGTGAAGGAACTTTCTGAGCGTGTTGCAAGTTATGTACATCTGTGTACCCTGTATTGGTGGCTCAG

upper sequence: GRMZM2G130398_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S72_57V6.7 (Physcomitrella patens), 3'ss of exon 6
----------------------gtaagcacctag-tcttttagaccat--------ctgatgcaagattttttatgactattatgtgttctaaaattttaatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG
                           || |||| ||||| | || ||          ||||| |  |  ||| | ||   |   |||  | ||  | |  ||   |||  | ||||| ||     || || |    ||| |   ||| ||||| |||  |||||||||||| |||||||| ||||||||||| ||
gtattgttgatgttcataccctcgcttcatctagatctttcacacaatgatctaaatggatgcgaagtgctttctaacc--tccctgtcatgaatctct--tgtcacagCTTTTATGGTGAGGAGGTTCCTATCGGAGAACTTTGTGAACGTGTTGCACATTATGTTCATCTGTGCACGCTCTACTGGTGGCTGAG

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|71449736|gb|DR830786.1|DR830786
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211351921|gb|FL214813.1|FL214813
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|78089684|gb|DV518058.1|DV518058
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|149044661|gb|EE047635.2|EE047635
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|26455745|gb|CA827328.1|CA827328
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|71767052|gb|DR964989.1|DR964989
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211354329|gb|FL214829.1|FL214829
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGKCTATGGAGAACCCATTTCTKTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|148949400|gb|EC894857.2|EC894857
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211349511|gb|FL214797.1|FL214797
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|76913938|gb|DV165334.1|DV165334
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|37417861|gb|CF646590.1|CF646590
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|32862844|gb|CF002526.1|CF002526
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAAT
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAAT
EST: gi|32843121|gb|CD982802.1|CD982802
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCCGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|149081024|gb|EE170124.2|EE170124
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|9254592|gb|BE345075.1|BE345075
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCT
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCT
EST: gi|76289822|gb|DV029390.1|DV029390
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|78106940|gb|DV525358.1|DV525358
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|29545051|gb|CB605229.1|CB605229
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|71767051|gb|DR964988.1|DR964988
EST:     GCAGGCAAAATT-TTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GCAGGC-AAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|31364473|gb|CD448828.1|CD448828
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|31353269|gb|CD437626.1|CD437626
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|149106946|gb|EE188847.2|EE188847
EST:     CAGGCAAA-TGTTTTCAAGGACCAAATCAGAAGCTGCCAG-TATGAAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATGGGCTGATCGTGTGGCAA
genomic: CAGGCAAATTG-TTTCAAGGACCAAATCAGAAGCTGCCAGTTATG-AAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAA
EST: gi|60351410|gb|DN218383.1|DN218383
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211351910|gb|FL214802.1|FL214802
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGT
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGT
EST: gi|71317411|gb|DR795418.1|DR795418
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAGGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|71771504|gb|DR969441.1|DR969441
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAGACCA                     
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATG--AA-A--Agtaagcacct ... aatgga
EST: gi|71771504|gb|DR969441.1|DR969441
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAGACCA                     
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATG--AA-A--Agtaagcacct ... aatgga
EST: gi|211351918|gb|FL214810.1|FL214810
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|33771241|gb|CF273420.1|CF273420
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|60345448|gb|DN212421.1|DN212421
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211354318|gb|FL214818.1|FL214818
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCARAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTTGATCGTGTGGCAA
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCT-GATCGTGTGGCAA
EST: gi|29947590|gb|CB816734.1|CB816734
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|149009039|gb|EE041221.2|EE041221
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|148945160|gb|EC890360.2|EC890360
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|60349038|gb|DN216011.1|DN216011
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|71449735|gb|DR830785.1|DR830785
EST:     CAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: CAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|148983025|gb|EE028929.2|EE028929
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|148933477|gb|EC877180.2|EC877180
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|76280505|gb|DV020073.1|DV020073
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|149106947|gb|EE188848.2|EE188848
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|148949401|gb|EC894858.2|EC894858
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211354323|gb|FL214823.1|FL214823
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211354330|gb|FL214830.1|FL214830
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAA
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAA
EST: gi|149044660|gb|EE047634.2|EE047634
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|60338881|gb|DN205854.1|DN205854
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|78120695|gb|DV539079.1|DV539079
EST:     AGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: AGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|78120696|gb|DV539080.1|DV539080
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|37361328|gb|CF602617.1|CF602617
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCCGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211349504|gb|FL214790.1|FL214790
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGC-AGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGG
EST: gi|78081016|gb|DV509428.1|DV509428
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211354331|gb|FL214831.1|FL214831
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|78026023|gb|DV494410.1|DV494410
EST:     GCCAGTTATGAAAA                         GGTTTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
genomic: GCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAG
EST: gi|211351915|gb|FL214807.1|FL214807
EST:     GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAA                         GGTCTATGGGAGA-CCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAA
genomic: GGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGG-AGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAA

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: 877

GCTGTTGCTGGTTTAGCAGCAGATGGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 674

GCTGTTGCTGGTTTAGCAGCAGATGGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 665

GCTGTTGCTGGTTTAGCAGCAGATGGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 607

GCTGTTGCTGGTTTAGCAGCAGATGGCAGGCAAATTGTTTCAAGGACCAAATCAGAAGCTGCCAGTTATGAAAAgtaagcacct ... aatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgatgcaagattttttatgactattatgtgttctaaaattttaatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG
            attttttatgactatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcacctagtcttttagaccatctgatgcaagattttttatgactattatgtgttctaaaattttaatggaccagGGTCTATGGAGAACCCATTTCTGTGAAGGAATTGGCTGATCGTGTGGCAAGTTATGTTCATCTTTGCACGCTGTACTGGTGGCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG