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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtttgtaagttctgattgacgtgaacctgatggatgctcactatactgccgctactgaggctattcatctgcttgaatttttgtgtttgtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG

Basic information

species Zea mays
transcript GRMZM2G151252_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G151252_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g52490.1 (Oryza sativa), 3'ss of exon 3
-tggtttgta-agttctgattgacgtgaacctgatggatgctcactatactgccgc-tactgaggctattcatctgcttgaatttttgtgtttgtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
  | | || | ||   | |   |  || | |||      || |  ||| || | |  |  ||   || |  || | ||| | ||| |   |||   ||| ||||||||||||||||| ||||||||||| || ||||||||||||||||| || |||||||| || ||||||||||||||||||||||||
tcgttgtggagagcaattaactagttgtatctgtgtccagcgccatattctcctgtatgttgttcctgtaaatttacttcattttgttccttt---ttgtcagAATGGTCTTGCTACCAAGGTTGAGAAATCTCGCAAGCAAATGAAAGAACGCAAGAACAGAGCTAAGAAGATCCGTGGTGTCAAGAAG

upper sequence: GRMZM2G151252_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT5G28060.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------tggtttgtaagttctgat-tgacgtgaacctgatg----gatgctcactatactgccgc----tactgaggctat--tcatctgcttgaatttttgtgtttgt-attgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
                                       | | || ||  || |  | |  | |   | || ||    |||  |||||    |||        | ||  | |    ||   | ||  |||  ||||   ||| |||| |||||||| ||||  || ||| ||||||| ||  | || || || || ||| ||||||||||||| ||||||||||||||||| ||||||
gtaatttctctttacttgtttgatagttaagtaaaacttttggttctagtttttagtctagcttactcttggtgctttgattttcactgctttgcgatgaaacaatggtgttgcaatctcatactgaaatgattgttgatgtgattgacagAATGGACTTGACACCAAGATTGAGAAATCAAGGAAACAGATCAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGTGGTGTTAAGAAG

upper sequence: GRMZM2G151252_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT3G04920.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------------------------------------------tggtttgtaagttctgattgacgtga-acctgatggatgct-cactatactgccgctactgaggct---attcatctgcttgaat---ttttgtgtttgta-ttgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
                                                                                        | || || || || | |   | |||| |  |   |||   |  |   || |||   |  ||        ||   | | ||| ||     ||||| | |||  ||| |||||||| ||||  |||||| ||||||||||  | || ||||| || ||  ||||||||||||| ||||| ||||||||||| ||||||
gtaaatgctttttccactcttgtttccattgttatatattgctactcacattgacccgtcttaaatcattactcttgctcattactgtttgtctgaaaattataagctatgtgataagtttcggactttatatcgtattgcacttggtgttctctgcatctttatacttaaacatgctttgtctatgtggttggcagAATGGACTTGACACTAAGATTGAGAAGTCAAGGAAACAAATTAAGGAAAGGAAGAACAGGGCGAAGAAAATCCGTGGTGTTAAGAAG

upper sequence: GRMZM2G151252_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0030g01620.t01 (Vitis vinifera), 3'ss of exon 3
tggtttgtaagttctgattgacgtgaacctgatggatgctcactatactgccgctactgaggctattcatctgcttgaatt---tttgtgtttgtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
|  ||   ||  ||   |   | |        || |   | | |   || || ||    |  | |||  ||| |||| |||   ||||  | | |  || ||||||||  | | ||| ||||| ||||||||  | ||||||||||| ||| ||||||| ||| |||||||| |||| ||||| ||||||
tttttaaaaaaatcacgtcttccttttttctttgaactttaattgccct-cctctctctaccccattt-tcttcttgcattgaatttgc-tgtttggtggcagAATGGATTGGATACCAAGGTCGAGAAGTCTAGGAAGCAAATGAAGGAGAGGAAGAATAGGTCCAAGAAGGTCCGAGGTGTAAAGAAG

upper sequence: GRMZM2G151252_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0151g00900.t01 (Vitis vinifera), 3'ss of exon 3
----tggtttgtaagttctgattgacgtgaacctgatggatgctcactatactgccgctactgaggctattcatctgcttgaatttttgtg-tttgtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
       | |  |  |  |||   | |  || || ||   ||||   |||  |||   |    |     |||   | ||   |   | |    |||| |   ||||||||  | | ||| ||||| || |||||  | ||||||||||| ||  |||||||||||||||||||| |||| || || ||||||
acaacaatgtacacttagtgaacaagg--aatcttatct-tgctt--tattttgctattcgaaacatgcttctctttctctgaccatagcaacttgtctgcgcagAATGGATTGGATACCAAGGTGGAAAAGTCAAGGAAGCAAATGAAGGAAAGGAAGAACAGGGCCAAGAAGGTCCGAGGAGTGAAGAAG

upper sequence: GRMZM2G151252_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S204_49V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------tggtttgtaa-gttctgattgacgtgaacctgatggatgct--cactatactgccgctactgaggctattcatctgcttgaatttttgtgtttgt-attgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
                 ||  | | |  ||  |||    |  ||| ||   |  |   ||  ||||   | |    |  ||   |||   | ||| ||  ||  ||||  | |   ||||||| || || || ||||||||||||||| | |||||||| || ||||| |||||| |  ||||||||||| | ||||| ||||||
gtatgtgtttccaccccttactgatgcccttgttgttacgtccctcatatttcataatacagtactaatggtcgcaattctgagcattc-catgacttcatgcatttgcgaattgtagAATGGACTGGCGACCAAGGTTGAGAAGTCCAGGAAGCAAATTAAGGAGCGCAAGAACCGTTCCAAGAAGATCAGGGGTGTGAAGAAG

upper sequence: GRMZM2G151252_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ29464 (Selaginella moellendorffii), 3'ss of exon 3
tggtttgtaagttctgattgacgtgaacctgatggatgctcactatactgccgctactgaggctattcatctgcttgaatttttgtgtttgtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
              ||| ||| |||| | | |||| | |||    | | ||    |||  ||    |  ||  |||| || ||          |||| |||| || ||||| || | ||   |||||||  | |||||  | || ||| ||||||||||||||||||||||||| || || ||||||
-------------gtgagtgaagtgagc-tcatggtttctcgacttgc-gctctaactctggaagcttttccccttgcatctt----------ttgc-agAACGGACTTGCAACCAGGGAGCAGAAGTCGAGGAAGCAGCTCAAGGAGAGGAAGAACAGGGCCAAGAAGATCCGCGGAGTGAAGAAG

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|14621547|gb|BI142308.1|BI142308
EST:     CGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: CGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|32911428|gb|CF016240.1|CF016240
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|37384104|gb|CF629099.1|CF629099
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|4837551|gb|AI670641.1|AI670641
EST:     ATAACCTCGAGTCTGCCAAGAAGTTGGAGCCCAAATGCCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|32864175|gb|CF003857.1|CF003857
EST:     GCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: GCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|29543821|gb|CB604201.1|CB604201
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|6695450|gb|AW288558.1|AW288558
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|29543742|gb|CB604122.1|CB604122
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|166421287|gb|EG152350.1|EG152350
EST:     CTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: CTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|19351052|gb|BM895584.1|BM895584
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|21331260|gb|BQ486641.1|BQ486641
EST:     CTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: CTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|8930253|gb|BE225017.1|BE225017
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|31558071|gb|CD527283.1|CD527283
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|33101619|gb|CF061579.1|CF061579
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|29544175|gb|CB604555.1|CB604555
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|32849324|gb|CD989005.1|CD989005
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|17921705|gb|BM259356.1|BM259356
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|28873677|gb|CB329632.1|CB329632
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGT-GAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|33092128|gb|CF052122.1|CF052122
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|87152088|gb|DY396877.1|DY396877
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|28987571|gb|CB351700.1|CB351700
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|32923426|gb|CF028238.1|CF028238
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|211338906|gb|FL394233.1|FL394233
EST:     AGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: AGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|32923248|gb|CF028060.1|CF028060
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|32911429|gb|CF016241.1|CF016241
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGGCAAATGAAAGAGCG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAA-GCAAATGAAAGAGCG
EST: gi|32929003|gb|CF033815.1|CF033815
EST:     CCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: CCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|29543417|gb|CB603813.1|CB603813
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|211400402|gb|FL382669.1|FL382669
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAGTGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|33095068|gb|CF055062.1|CF055062
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGGCAAATGAAAGAGCG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAG-CAAATGAAAGAGCG
EST: gi|211422660|gb|FL460763.1|FL460763
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|19436140|gb|BM952550.1|BM952550
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|60353225|gb|DN220198.1|DN220198
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|33091287|gb|CF051281.1|CF051281
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|71774798|gb|DR972676.1|DR972676
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
EST: gi|14701101|gb|BI233519.1|BI233519
EST:     ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGG                         AATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG
genomic: ATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGG

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: 1031

CCGCACCCACTTCGGTGGAGGCAAGTCCACTGGCTTCGGCCTCATCTACGATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 643

CCGCACCCACTTCGGTGGAGGCAAGTCCACTGGCTTCGGCCTCATCTACGATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 742

CCGCACCCACTTCGGTGGAGGCAAGTCCACTGGCTTCGGCCTCATCTACGATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 435

CCGCACCCACTTCGGTGGAGGCAAGTCCACTGGCTTCGGCCTCATCTACGATAACCTCGAGTCTGCCAAGAAGTTCGAGCCCAAATACCGCCTCATCAGGgtatgttgtc ... gtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgccgctactgaggctattcatctgcttgaatttttgtgtttgtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG
                             ttgaattttt  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
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tggtttgtaagttctgattgacgtgaacctgatggatgctcactatactgccgctactgaggctattcatctgcttgaatttttgtgtttgtattgccagAATGGTCTTGCTACTAAGGTTGAGAAGTCCCGCAAGCAAATGAAAGAGCGGAAGAACAGGGCCAAGAAGATCCGTGGTGTCAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - -ctgattg
- - - - - - - - - - - - gaacctg
- - - - - - - - - - - - - - - - tggatgc
- - - - - - - - - - - - - - - - - - - - - - -tactgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - gctactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgttt