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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggcctgtgttgtttcggatatcctctattttgtcttgaactgagagtctgaaacaaagggagtggtgtgaaaaccttgttttataaagagaat...

Basic information

species Zea mays
transcript GRMZM2G109383_T01
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109383_T02 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os03g50480.1 (Oryza sativa), 5'ss of exon 16
AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatg-taggcctgtgttgtttcggatatcctctattttgtcttgaactgagagtct-gaaacaaagggagtggtgtg--aaaaccttgttttataaa---gagaat--------------------------------------------------------------
 || ||||| || || ||||||||||| ||||||||||||||||| ||||| |||||||| |||||  |||| |||||||| ||||||||||| || |||||||| |     | |||| ||     |   |  |||  | || |  | |  |  ||| ||| |||||  | ||  ||   | ||  | |  ||  |||   | |  |                                                              
TGTGGTTGCCGCAGATGAGTTTGAGTATAAGGATCCTGTTGATGGTTCTGTCTCCAAGCATCAGGGTGTCCGGTACCTCTTCGGAGATGGTTCCCGGCTGgtatggtcccattctgttattgtttgttgaccttataatatccttcattttgtttcttgaaccaaagcaaatgaagtagcacaatttggcattgcaaattcgggtgtttatcgcagagtgtgagtgcaacaaatactggtgaactgaccattagttcctcaaattctag

upper sequence: GRMZM2G109383_T02 (Zea mays), 5'ss of exon 16
lower sequence: AT1G70730.1 (Arabidopsis thaliana), 5'ss of exon 16
AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggcctgtgttgtttcggatatcctctattttgtcttgaactgagagtctgaaacaaagggagtggtgtgaaaaccttgttttataaagagaat
 || |     || || ||||| |||||||| ||||| || ||||||||||| || |||||||| || ||||||||| | || |  ||||| |||||||| ||| || |   ||||| |    ||||       | ||   |   | ||| ||   || || |        ||  |     |  |  || || |||     
TGTTGCAAGCGCAGATGAGTTCGAGTACAAAGATCCAGTAGATGGCTCTGTTTCAAAGCACCAAGGGATCCGATACTTATTCGAGGATGGATCACGACTTgtaagtcgatatgtgt-gaaatggattcataacaattcaac--aacctgtgaaattgtaaaagctaatccgggcttgtttctcttgttcatgaag-----

upper sequence: GRMZM2G109383_T02 (Zea mays), 5'ss of exon 16
lower sequence: PP1S4_12V6.1 (Physcomitrella patens), 5'ss of exon 17
AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggcctgtgttgtttcggatatcctctattttgtcttgaactgagagtctgaaacaaagggagtggtgtgaaaaccttgttt-tataaagagaat
 ||    | |||||||||||||||||| |||||||| |||||    ||  | ||||  |||||||| ||||| ||||| ||    |||||||| || |||||  ||     | | |  |||| ||| |     ||||  |  |    | |   |  |||   |   |||   | ||       || |  ||| |    | |
GGTTCAAGAAGCTGACGAGTTTGAGTATAAGGATCCAGTTGACCAGTCCATATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttctatttctattttcagat-tgaaaaatttgttagtcccgtcattcttggaagtgagacgagacatctgggttagatgctggtatcagagcagt

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|7304556|gb|AW600495.1|AW600495
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211190027|gb|FL186117.1|FL186117
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|16927237|gb|BM080306.1|BM080306
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|29130007|gb|CB380711.1|CB380711
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|7216825|gb|AW562947.1|AW562947
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|37384716|gb|CF629452.1|CF629452
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|30088268|gb|CB886473.1|CB886473
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|120480298|gb|EH210799.1|EH210799
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|149109220|gb|EE293196.2|EE293196
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|18167299|gb|BM337138.1|BM337138
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211341564|gb|FL066570.1|FL066570
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|12970130|gb|BG266829.1|BG266829
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211341566|gb|FL066572.1|FL066572
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|6527071|gb|AW216286.1|AW216286
EST:     GGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: GGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|67025110|gb|CO453859.1|CO453859
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|213175101|gb|FM189490.1|FM189490
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211541125|gb|FL006426.1|FL006426
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|5649990|gb|AI920350.1|AI920350
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|32799288|gb|CD951524.1|CD951524
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|4966490|gb|AI691346.1|AI691346
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|149099503|gb|EE185541.2|EE185541
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|12046898|gb|BF729037.1|BF729037
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211341569|gb|FL066575.1|FL066575
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|78180558|gb|DV551051.1|DV551051
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|213170007|gb|FM188153.1|FM188153
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|67024524|gb|CO453273.1|CO453273
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211341565|gb|FL066571.1|FL066571
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|60401463|gb|DN234270.1|DN234270
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|31354675|gb|CD439032.1|CD439032
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|32909657|gb|CF014469.1|CF014469
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|149013082|gb|EE042781.2|EE042781
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|24768906|gb|CA404035.1|CA404035
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|19769326|gb|BQ034047.1|BQ034047
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|78022451|gb|DV490838.1|DV490838
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|8102956|gb|AW927626.1|AW927626
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|5762084|gb|AI967132.1|AI967132
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|5499312|gb|AI855179.1|AI855179
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|67014425|gb|CO443174.1|CO443174
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|5296227|gb|AI782907.1|AI782907
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|149014022|gb|EE043540.2|EE043540
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|31356718|gb|CD441075.1|CD441075
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGGACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|148974650|gb|EE025448.2|EE025448
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTG                         GTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC

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: 288

AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 470

AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 207

AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 631

AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggc ... gacattctagGTGTTCCGCCTCTCTGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGG


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
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AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCTGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTTGGAGATGGTTCACGACTGgtatgtaggcctgtgttgtttcggatatcctctattttgtcttgaactgagagtctgaaacaaagggagtggtgtgaaaaccttgttttataaagagaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagagaa