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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgtgagcacaaatcacttatctggaaacctttctatgaccatttgttttagtgatctttttattggttactctttttctgactatcttctgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG

Basic information

species Zea mays
transcript GRMZM2G159369_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g06430.1 (Oryza sativa), 3'ss of exon 1
--ctgtgagcacaaatcacttatctggaaacctttctatgaccatttgt-tttagtgatctttt-tattggttactctttttctgactatcttctgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG
  || | |    | |||       |||      ||    ||   ||| | | ||| ||  ||   ||||  |||   | ||| ||| |   || ||||| | |||||||| |||||||| ||||||||||| || || |||||||| || || || |||||||| || ||||| || || || || |||
ggcttttatgttatatcttgcgg-tggttggtgttgggggagggtttatgtatagagaaattcgatattttttaaa-tgtttgtgattgattt-tgttt-tcagGTGTGGTCACTGCAAGAAGCTTGCCCCTGAATACGAAAAACTCGGTGCAAGTTTCAAGAAAGCCAAATCAGTCCTAATTGCGAAG

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G01820.1 (Glycine max), 3'ss of exon 2
ctgtgagcacaaatcacttatctggaaacctttctatgaccatttgttttagtgatctttttattggttactctttttctgactatcttctgtttctt------agGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG
     | | ||| ||| |   ||    || |    ||  || | |||| |  || ||  |  ||  || | | | |||  ||  |  | || |||  |      |||||||| ||||||||||||||||| || || |||||||| |||||   |||||||||||| || ||||||||  | || |  |||
----taac-caattcattgtactaattacttagtaatttccttatgttattatgttcacta-atatgtcattatgtttacgatcacttccttttttgttgtaatagGTGTGGACACTGCAAAAAGCTTGCTCCAGAATATGAAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATTGGCAAG

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA02G01750.1 (Glycine max), 3'ss of exon 1
ctgtgagcacaaatcacttatc-tggaaacctttctatgaccat-ttgttttagtg-atctttttattggttactctttttctgactatcttctgtttctt-----agGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG
          ||   | | ||  | | ||    |   | ||    || | |||||   |    | ||  || | | | |||  ||  |  | || ||| ||     |||||||| ||||||||||||||||| || || |||||||| |||||   |||||||||||| || ||||||||  | || |  |||
--------ttaacctattcattgtagtaattactaagtaacttccttatattagtatgtacactaatatgtcattatgtttacgatcacttcctctttgttgtaatagGTGTGGACACTGCAAAAAGCTTGCTCCAGAATATGAAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 1
ctgtgagcacaaatcacttatctggaaacctttctatgaccatttgttttagtga-tctttttattggttactctttttctgactatcttctgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG
 | |      | ||   |||    ||||        |    || |||  |  ||| |||   || | |    | |     ||   ||  | |   |  ||||||||| |||||||| || ||||| || ||||||||||| || || || ||||||||||||||||| |||||  |||| ||||||
-tttcgatttatatgttttactgagaaattagagcttactgatgtgtgctgttgaatctgactaattgcatttatggaattggacatggttttaataatagGTGTGGTCACTGCAAGAAACTTGCTCCAGAGTATGAAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAG

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|211334950|gb|FK966339.1|FK966339
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332792|gb|FK966335.1|FK966335
EST:     AAGGAGGTCAGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|22819386|gb|BU499476.1|BU499476
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334956|gb|FK966345.1|FK966345
EST:     AAGGAGGTCAGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332783|gb|FK966326.1|FK966326
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334952|gb|FK966341.1|FK966341
EST:     AAGGAGGTCAGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334947|gb|FK966336.1|FK966336
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|148929737|gb|EC876638.2|EC876638
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332787|gb|FK966330.1|FK966330
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334959|gb|FK966348.1|FK966348
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|20507142|gb|BQ279504.1|BQ279504
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAATTACTTGGCGCCTG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|74239675|gb|DT647589.1|DT647589
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|32858375|gb|CD998056.1|CD998056
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|9254368|gb|BE344836.1|BE344836
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|88755206|gb|DY539347.1|DY539347
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332782|gb|FK966325.1|FK966325
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|111145784|gb|EE258169.1|EE258169
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|71445959|gb|DR827009.1|DR827009
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCCG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|148961930|gb|EE012722.2|EE012722
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334948|gb|FK966337.1|FK966337
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCA-
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|31360143|gb|CD444500.1|CD444500
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGGGGGATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334955|gb|FK966344.1|FK966344
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|6994161|gb|AW453375.1|AW453375
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|71326461|gb|DR799910.1|DR799910
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|26457090|gb|CA828673.1|CA828673
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332789|gb|FK966332.1|FK966332
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCA-
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|148929195|gb|EC874742.2|EC874742
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|33285626|gb|CF075421.1|CF075421
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211001445|gb|FL439450.1|FL439450
EST:     GCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: GCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|24763723|gb|CA398894.1|CA398894
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332788|gb|FK966331.1|FK966331
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|149096330|gb|EE182049.2|EE182049
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332781|gb|FK966324.1|FK966324
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAS
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|149044453|gb|EE047574.2|EE047574
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|32864543|gb|CF004225.1|CF004225
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332785|gb|FK966328.1|FK966328
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|78084675|gb|DV513068.1|DV513068
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334949|gb|FK966338.1|FK966338
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCA-
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332784|gb|FK966327.1|FK966327
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|22935460|gb|BU571735.1|BU571735
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         G-GTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|21891538|gb|BQ744751.1|BQ744751
EST:     CTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: CTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334953|gb|FK966342.1|FK966342
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|148955860|gb|EC901555.2|EC901555
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334954|gb|FK966343.1|FK966343
EST:     AAGGAGGTCAGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211332790|gb|FK966333.1|FK966333
EST:     AAGGAGGTCAGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
EST: gi|211334957|gb|FK966346.1|FK966346
EST:     AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATG                         GTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG
genomic: AAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAG

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), 47 (downstream exon)
Score: 229

CGCCCGCCACCGCCGACGAGGTGGTGGCCCTGACGGAAGCCGACTTCGAGAAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 289

CGCCCGCCACCGCCGACGAGGTGGTGGCCCTGACGGAAGCCGACTTCGAGAAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 136

CGCCCGCCACCGCCGACGAGGTGGTGGCCCTGACGGAAGCCGACTTCGAGAAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 519

CGCCCGCCACCGCCGACGAGGTGGTGGCCCTGACGGAAGCCGACTTCGAGAAGGAGGTCGGCCAGGACCGCGGCGCCCTCGTCGAGTTCTACGCGCCATGgttcgccccc ... tgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttagtgatctttttattggttactctttttctgactatcttctgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG
                               ttctgac  putative branch site (score: 519)
                         ctctttttctgactat  CT-rich tract
         atctttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgtgagcacaaatcacttatctggaaacctttctatgaccatttgttttagtgatctttttattggttactctttttctgactatcttctgtttcttagGTGTGGCCACTGCAAAAAGCTTGCCCCCGAGTATGAAAAACTTGGCGCCAGCTTCAAGAAGGCTAAATCTGTACTGATAGCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - gcacaaa
- - - - - - - - - - - - - - - - - - - -ccatttg