Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatacctaccatgcggctatgccctttcgattcacagagcataacataccttgggcttctgtgaaactgcgtttactaatttgtgtctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAATTTTGAAGAGTGTTTTAGAATGAGTTG

Basic information

species Zea mays
transcript GRMZM2G109383_T01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109383_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os03g50480.1 (Oryza sativa), 3'ss of exon 17
gtaagatacctaccatgc-----ggctatgccctttcga---ttcacagagca---taacataccttgggcttctg----tgaaactgcgtttactaatttgtgtctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAA-TTTTGAAGAGT-GTTTTAGAATGAGTTG
|||||| | |  |  ||      |||| |||| ||| ||   ||  | |||||   |  |  |||||   |||| |    | |  | ||   |   |   | ||  | |||| ||||||||||||| || ||||| || |||||||||||||||||||| || ||||| ||||||||||||||||||| |||| |||||   || |||||||  |  
gtaagacatccgcgctgtatattggctttgccttttggaccgttttccgagcaagtttgcggacctttttcttcagactttaattcagcaaatctgaccatctgctttatcc-agGTTGATGTTGCACTGAAGCTGTCAAAGATGCAAGAGTACACTGGCCGATCTGCTCCCACCGTCATCACATAAACTTTTCAAGAGCCATTCTAGAATGCTT--
















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:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|211190027|gb|FL186117.1|FL186117
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|16927237|gb|BM080306.1|BM080306
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|29130007|gb|CB380711.1|CB380711
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|7216825|gb|AW562947.1|AW562947
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|37384716|gb|CF629452.1|CF629452
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|30088268|gb|CB886473.1|CB886473
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTTCCAAGATGCAAGAG
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCT-CCAAGATGCAAGAG
EST: gi|120480298|gb|EH210799.1|EH210799
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|149109220|gb|EE293196.2|EE293196
EST:     GGGACTCCTTTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|18167299|gb|BM337138.1|BM337138
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|211341564|gb|FL066570.1|FL066570
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGWCGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|12970130|gb|BG266829.1|BG266829
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|211341566|gb|FL066572.1|FL066572
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|213192776|gb|FM182373.1|FM182373
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|67013491|gb|CO442240.1|CO442240
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|6527071|gb|AW216286.1|AW216286
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|67025110|gb|CO453859.1|CO453859
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|213175101|gb|FM189490.1|FM189490
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|211541125|gb|FL006426.1|FL006426
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GNNTGATGT-GCGCTCNAGCTCTCCAAGATGCAAGAGTACACTGGACGCTC
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGT-TGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTC
EST: gi|5649990|gb|AI920350.1|AI920350
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|32799288|gb|CD951524.1|CD951524
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|4966490|gb|AI691346.1|AI691346
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|149099503|gb|EE185541.2|EE185541
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|12046898|gb|BF729037.1|BF729037
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|6827739|gb|AW331382.1|AW331382
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|211341569|gb|FL066575.1|FL066575
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|78180558|gb|DV551051.1|DV551051
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|213170007|gb|FM188153.1|FM188153
EST:     GGACTCCTCTAAGNCNGNGCAGNGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCNNNAGTACACTGGACGCTCT
genomic: GGACTCCTCTAAGACCG-GCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|67024524|gb|CO453273.1|CO453273
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|211341565|gb|FL066571.1|FL066571
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|60401463|gb|DN234270.1|DN234270
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|32909657|gb|CF014469.1|CF014469
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|149013082|gb|EE042781.2|EE042781
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|24768906|gb|CA404035.1|CA404035
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|19769326|gb|BQ034047.1|BQ034047
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|22546123|gb|BU098444.1|BU098444
EST:     AAGACCGGCAGGGATTCCCAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: AAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|78022451|gb|DV490838.1|DV490838
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|5762084|gb|AI967132.1|AI967132
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|5499312|gb|AI855179.1|AI855179
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCCTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|67014425|gb|CO443174.1|CO443174
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|5296227|gb|AI782907.1|AI782907
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|149014022|gb|EE043540.2|EE043540
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|31356718|gb|CD441075.1|CD441075
EST:     GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
EST: gi|148974650|gb|EE025448.2|EE025448
EST:     GGGACTCCTTTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTG                         GTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT
genomic: GGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCT

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: 515

AACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAATTTTGAAGAGTGTTTTAGAATGAGTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 663

AACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAATTTTGAAGAGTGTTTTAGAATGAGTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 278

AACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAATTTTGAAGAGTGTTTTAGAATGAGTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1434

AACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAGTACGAGAGGGACTCCTCTAAGACCGGCAGGGATTCACAGGACGCCCTTGCTCCGCTGgtaagatacc ... ctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAATTTTGAAGAGTGTTTTAGAATGAGTTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacataccttgggcttctgtgaaactgcgtttactaatttgtgtctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAATTTTGAAGAGTGTTTTAGAATGAGTTG
                                tactaat  putative branch site (score: 1434)
                                            tctcatccc  putative PPT
                              tttactaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagatacctaccatgcggctatgccctttcgattcacagagcataacataccttgggcttctgtgaaactgcgtttactaatttgtgtctcatcccagGTTGATGTTGCGCTCAAGCTCTCCAAGATGCAAGAGTACACTGGACGCTCTGCCCCCACCGTCATCACATAAATTTTGAAGAGTGTTTTAGAATGAGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA