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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaaactgtttctagtacctggcaatcaatggttttcctaccttgactaagcactgtcacaattttcttcctttcag

Basic information

species Oryza sativa
transcript LOC_Os07g47580.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G174204_T01 (Zea mays), 5'ss of exon 5
GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaaactgtttctagtacctggcaatcaatggttttcctaccttgactaagcactgtcacaattttcttcctttcag
|| |||||||||||||| ||||||||||||| ||||||||||||||||||||| |||||  ||||||||||| || ||||  |  |           ||   |||| |     | || ||   |     ||  | |  || | || |  |||||||||
GTACTCAGCAACACAATCAAGCAAAAGAGGAAGGAAAAGGCTGGCAAATGGGATGTTCCGCTGCCAAAGgtgtttgtcaaatctga-----------acacagcaaacc----tatttctggttgattcaatgagttacatatttcttgtcctttcag

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G009876_T01 (Zea mays), 5'ss of exon 5
GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaaactgtttctagtacctggcaatcaatggttttcctaccttgactaagcactgtcacaattttcttcctttcag
||||||||||||||||| ||||||||||||| ||||||||||||||||||||| |||||| |||||||||||||| ||||||||    |    |      | ||  ||||||| ||   |   || |||         |||| |||| | ||||||||
GTTCTCAGCAACACAATAAAGCAAAAGAGGAAGGAAAAGGCTGGCAAATGGGATGTTCCTCTGCCAAAGgtgattctcaacacagcacgcccatttctggttgct-tcaatgggttagtt---tttact---------cacagttttat-cctttcag

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G174204_T02 (Zea mays), 5'ss of exon 1
-------------------------------GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaaactgtttctagtacctggcaatcaatggttttcctaccttgactaagcactgtcacaattttcttcctttcag
                               || |||||||||||||| ||||||||||||| ||||||||||||||||||||| |||||  ||||||||||| || ||||  |  |           ||   |||| |     | || ||   |     ||  | |  || | || |  |||||||||
GCATTGATCACTGATTTCTGGTGAAGCGTAGGTACTCAGCAACACAATCAAGCAAAAGAGGAAGGAAAAGGCTGGCAAATGGGATGTTCCGCTGCCAAAGgtgtttgtcaaatctga-----------acacagcaaacc----tatttctggttgattcaatgagttacatatttcttgtcctttcag

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA10G10000.1 (Glycine max), 5'ss of exon 5
GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaa-actgtttctagtacctggcaatcaatggttttcctaccttga--ctaagcactgtcacaattttcttcctttcag---------------------------------------------------------------
||||| ||||||||||||||||||||||||| ||| ||||| || |||||||| |||||| | || |||||||  ||     ||| ||| | |  | ||  ||  ||   ||   |||   |   ||   || |   || |  ||  ||| ||   |                                                                   
GTTCTTAGCAACACAATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattacgttcaatactttgtgcatta--tgttaaatgatatcttttgcaatgtgtatcttattgctatttcatgtttgttttatgtttccctgtgaatggaagggagcgaacttggtaattaaatgaatgtatgctttctcatttcttcag

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA10G00490.1 (Glycine max), 5'ss of exon 5
GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaa-actgtttctagtacct--ggcaatcaatg-gttttcctacct-tgactaagcactgtcaca-----attttcttcctttcag----------------------------------------------------------
||||| |||||||| |||||||||||||||| ||| ||||| || |||||||| |||||| | || |||||||  ||     ||| ||| | |  | |   |  |  ||   ||  || || | |  | |  || |   || |  ||      |||| |   |  | |                                                          
GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgcgttcaatactttgtgcattgattatgttaaatgatatgtcttgcaatttgtatcttattgctatgtcatgtgtgttttatgtttccctgtgaatggaagggagtgaacttggtaattaaatgaatgtatgctttctcatttcttcag

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA02G35500.1 (Glycine max), 5'ss of exon 5
GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaa-actgtttcta--gtacctggcaatcaatggttttcctaccttga--ctaagcactgtcaca-----attttcttcctttcag-----------------------------------------------------------
||||| |||||||| |||||||||||||||| ||| ||||| || |||||||| |||||| | || |||||||  ||     ||| ||| |||  |  |    ||  || | ||   | |   |  |||   ||     || |  ||      |||| |   |  | |                                                           
GTTCTTAGCAACACCATTAAGCAAAAGAGGAAGGAGAAGGCAGGGAAATGGGATGTTCCTCTACCTAAGgtgaaattgcgttcaatactttttgcacggattatgttaaacgatatctcttgcaatttgttccttgtttctatttcatgtgtgttttatgtttccctgttaatggaagggagcgagcttgagtaattaaatgaatgtatactttctcatttcttcag

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G06360.1 (Arabidopsis thaliana), 5'ss of exon 5
GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaaactgtttctagtacctggcaatcaatgg-ttttcctaccttgactaagcactgtcacaattttcttcctttcag--
||||| |||||||| ||||| ||||||||||  || || ||||||||||||||||| ||| | ||||||||||  |    | |   ||| || |     |   || |   ||   | |   |  | | | ||||       |||      |||||| |   
GTTCTTAGCAACACCATTAAACAAAAGAGGAAAGAGAAAGCTGGCAAATGGGAGGTCCCTCTTCCAAAGgtgaaatctctctc--tctgcttttgtattccttcagtgtttgaactctaacaaatgggcaaagcttaaattcaagccctgtccttttacag

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|58689868|gb|CK078555.1|CK078555
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|33653812|gb|CF276426.1|CF276426
EST:     GCAAAAGAGGATGGAAAAGGCTGGCAAATNGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: GCAAAAGAGGATGGAAAAGGCTGGCAAAT-GGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|88395389|gb|CI611306.1|CI611306
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGT
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGT
EST: gi|33688902|gb|CF317141.1|CF317141
EST:     GCAAAAGAGGATGGAAAAGGCTGGCAAANTGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: GCAAAAGAGGATGGAAAAGGCTGGCAAA-TGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|218487556|gb|FG947559.1|FG947559
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|218486392|gb|FG950823.1|FG950823
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTC
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTC
EST: gi|12622982|gb|AU173195.1|AU173195
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|218488945|gb|FG960620.1|FG960620
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCACAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|29624519|gb|CB629530.1|CB629530
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|86599846|gb|CI256008.1|CI256008
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|29662524|gb|CB658799.1|CB658799
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|86599387|gb|CI251345.1|CI251345
EST:     AGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|218483549|gb|FG959691.1|FG959691
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|29668015|gb|CB664290.1|CB664290
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|218489207|gb|FG951304.1|FG951304
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|29668016|gb|CB664291.1|CB664291
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|86499796|gb|CI142429.1|CI142429
EST:     CAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: CAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|33814059|gb|CF332914.1|CF332914
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAA-TGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|58681353|gb|CK070040.1|CK070040
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|33658076|gb|CF280690.1|CF280690
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|88364720|gb|CI612535.1|CI612535
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGG
EST: gi|33657881|gb|CF280495.1|CF280495
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|33794028|gb|CF322904.1|CF322904
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|87022128|gb|CI259200.1|CI259200
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|218480798|gb|FG956053.1|FG956053
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|38469043|gb|CF953174.1|CF953174
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|33692111|gb|CF320350.1|CF320350
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGCGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|58678013|gb|CK066700.1|CK066700
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|33809375|gb|CF330567.1|CF330567
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
EST: gi|313079531|gb|HO213089.1|HO213089
EST:     AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAG                         GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG
genomic: AGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAG

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 1 RNA-Seqlibrary.


Block sizes: 69 (upstream exon), 75 (downstream exon)
Score: 149

GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttca ... ttcctttcagGTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTCAGCAACACAATTAAGCAAAAGAGGATGGAAAAGGCTGGCAAATGGGAGGTTCCTTTGCCAAAGgtgattttcaacacaaactgtttctagtacctggcaatcaatggttttcctaccttgactaagcactgtcacaattttcttcctttcag

- - - - - - - - - - - - AAGAGG
- - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - -  GATGGA