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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctcatcttccatatgtgatatcagattataattgtatgtgtttttgtttcgctgcaaattaattatattgatgcgaagtttctctgcatttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCTTTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA

Basic information

species Oryza sativa
transcript LOC_Os03g63020.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g63020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G045241_T03 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------tctcatcttcca----tatgtgatatcagattataattgtatgtgtttt-tgtttcgctgcaaattaattatattgatgcgaagtttctctgcatttg-attgcagATTTT-CGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT-TTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA-
                                                                     ||   | |  ||      |||    | || || |   || | | |  |  | ||  | |    |  || |||          | ||  | | |  ||  |||||||||||| | ||||| |||||||||||| ||||  |||||||||||||  |||  ||| || | ||||   | ||| ||||| ||   | | |   |   |||| 
gtacaactgtttttcggtgcacgaaatgaaaaaccgatgcatatattcctcagggtttgcttgcttagttcctgtatctcaatggcttgtttacttagtttctgtgtggaggagggtaatattatgttctgtaccaagtattgaagcaaatatttcttttactcttacattgcagATTTTTCCATGCACTTTAGGCTAAAAATGCTTTGGTCTGAAACCTATCTGCCCTTTTTTCTGGCCGCCAACGGTTTCAGCCAACGCATACCAGTG---ATGAA

upper sequence: LOC_Os03g63020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G045241_T01 (Zea mays), 3'ss of exon 1
tctcatcttccatatgtgatatcagattataattgtatgtgtttttgtttcgctgcaaattaattatattgatgcgaagtttctctgcatttg-attgcagATTTT-CGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT-TTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA-----------------------------------------
                                                                                |  | | |  ||  |||||||||||| | ||||| |||||||||||| ||||  |||||||||||||  |||  ||| || | ||||   | ||| ||||| ||   | | |   |   | ||                                         
--------------------------------------------------------------------------------tcttttactcttacattgcagatttttccatgcactttaggctaaaaatgctttggtctgaaacctatctgcccttttttctggccgccaacggtttcagCCAACGCATACCAGTGATGAAGATCTTCCGCTGAAGCTTGCTCAAGCTGCAATAAAGCATGACG

upper sequence: LOC_Os03g63020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G045241_T02 (Zea mays), 3'ss of exon 1
-tctcat---cttccatatgtgatatcagattataattgtatgtgtttttgtttcgctgcaaattaattatattgatgcgaag--tttctctgcatttg-attgcagATTTT-CGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT-TTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA-
 |||||    |||   ||  |  | || |  |  |   |  |    || ||||  |   ||| |       ||||| || ||   ||  | | |  ||  |||||||||||| | ||||| |||||||||||| ||||  |||||||||||||  |||  ||| || | ||||   | ||| ||||| ||   | | |   |   |||| 
atctcaatggcttgtttacttagtttctgtgtggaggagggtaatattatgttctgtaccaagt-------attgaagcaaatatttcttttactcttacattgcagATTTTTCCATGCACTTTAGGCTAAAAATGCTTTGGTCTGAAACCTATCTGCCCTTTTTTCTGGCCGCCAACGGTTTCAGCCAACGCATACCAGTG---ATGAA

upper sequence: LOC_Os03g63020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G045241_T04 (Zea mays), 3'ss of exon 1
tctcatcttccatatgtgatatcagattataattgtatgtgtttttgtttcgctgcaaattaattatattgatgcgaagtttctctgcatt-tgattgcagAT--TTTCG----ATGCATTTTAG-GCTAAAAGTGCTCGGGTCTGAAACCTACGT--GCTTTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA---
     ||||  |  | | | ||   |  ||  ||  |||   ||| |    |||  ||||   ||    |||  |  |  | | ||   || ||   ||  |   ||||     | ||||   || | | ||  |  || |  ||||| | | |    |||    |       || | | |||     ||  || | |   |   ||||    
-----tcttttac-tcttacattgcag-atttttccatgcactttag----gctaaaaatgctttggtctgaaacctatctgcccttttttctggccgccaacggtttcagCCAACGCATACCAGTGATGAAGATCTTCCG--CTGAAGCTTGCTCAAGCTGCAATAAAGCATGACGGTTGTGCACATAATGATGCTTAATCATTCATGTTGC

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|88426308|gb|CI574191.1|CI574191
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88358058|gb|CI604983.1|CI604983
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88357458|gb|CI622307.1|CI622307
EST:     GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88718559|gb|CI742069.1|CI742069
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88422509|gb|CI571491.1|CI571491
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88453282|gb|CI565724.1|CI565724
EST:     GAGGAGAGGAGGCT-CGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88411910|gb|CI571402.1|CI571402
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88691571|gb|CI733649.1|CI733649
EST:     GTCGTATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88313234|gb|CI594864.1|CI594864
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|29628840|gb|CB633851.1|CB633851
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88386056|gb|CI570691.1|CI570691
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGC-
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|58687477|gb|CK076164.1|CK076164
EST:     TTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: TTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88299075|gb|CI570045.1|CI570045
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88312345|gb|CI582683.1|CI582683
EST:     GAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|29644978|gb|CB649985.1|CB649985
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|29633043|gb|CB638052.1|CB638052
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88423805|gb|CI609836.1|CI609836
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88390286|gb|CI605739.1|CI605739
EST:     GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|117226423|gb|CT848659.1|CT848659
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88313790|gb|CI597421.1|CI597421
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88299627|gb|CI574740.1|CI574740
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88400094|gb|CI588398.1|CI588398
EST:     GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88416100|gb|CI594212.1|CI594212
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|29633012|gb|CB638021.1|CB638021
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88417218|gb|CI576292.1|CI576292
EST:     GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88571993|gb|CI663564.1|CI663564
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88423403|gb|CI576528.1|CI576528
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88693778|gb|CI735355.1|CI735355
EST:     GTCGTATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88298944|gb|CI567947.1|CI567947
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88368186|gb|CI575068.1|CI575068
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|29613394|gb|CB618407.1|CB618407
EST:     CATGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88691271|gb|CI733855.1|CI733855
EST:     GTCGTATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|66918933|gb|CX105781.1|CX105781
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88417420|gb|CI579081.1|CI579081
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88571817|gb|CI663190.1|CI663190
EST:     GGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88389742|gb|CI626511.1|CI626511
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88426056|gb|CI604345.1|CI604345
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88387357|gb|CI580702.1|CI580702
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88415294|gb|CI586500.1|CI586500
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88456127|gb|CI567693.1|CI567693
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88732433|gb|CI755610.1|CI755610
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88430937|gb|CI571927.1|CI571927
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88415452|gb|CI586658.1|CI586658
EST:     GAGGCTCCGCCGCGATTTTTTC-GTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|29613119|gb|CB618132.1|CB618132
EST:     GCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|2431126|gb|C73546.1|C73546
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88392579|gb|CI625401.1|CI625401
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|88393807|gb|CI621302.1|CI621302
EST:     AGGAGAGGAGGCTCCGCCGCCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: AGGAGAGGAGGCTCCGCCG-CGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
EST: gi|29663526|gb|CB659801.1|CB659801
EST:     GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATG                         ATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT
genomic: GAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCT

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: 53 (upstream exon), 75 (downstream exon)
Score: 16

AATTTCTCGTCTCCCCCCTTCCTCCAATATATCGGCGGCGATCCCGGCTCGAGGAGAGGAGGCTCCGCCGCGATTTTTTCGGTGTCGCATCGAAATTATGgtgagttggt ... ttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCTTTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttcgctgcaaattaattatattgatgcgaagtttctctgcatttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCTTTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA
           aaattaattatattga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctcatcttccatatgtgatatcagattataattgtatgtgtttttgtttcgctgcaaattaattatattgatgcgaagtttctctgcatttgattgcagATTTTCGATGCATTTTAGGCTAAAAGTGCTCGGGTCTGAAACCTACGTGCTTTTCTTGTCGCCGAAGATGGTGTCAGCAAATATACATCGACGCACATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- -catcttc
- - - - - catatgt
- - - - - - - - - - - - - - - - ttgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - -gctgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctgca