Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcgcatccctgttgtacttgcttagtttagaaatatcctaaatagttaataattggttccggatcttggacttgcag

Basic information

species Zea mays
transcript GRMZM2G115948_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os02g42320.1 (Oryza sativa), 5'ss of exon 8
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcgcatccctgttgtacttgcttagtttagaaatatcctaaat-agttaataattggttccggatcttggacttgcag
|||||||||||| ||||||||||||||||||||||| ||||| ||||||||| ||||||||||||||  || | |      || |  ||   || ||  | || ||||| | | ||||| | | || ||| ||   |           
ATACACAGAAGACATGGAGCTTGATGATGCCATCCATACTGCCATTTTGACTCTGAAAGAAGGgtatgtcttgtaggtgc-ttctgttt--ctatttccggaacatccttactgagttactgactgattcgggggttgcag-------

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA03G16660.2 (Glycine max), 5'ss of exon 10
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcgcatccctgttgtacttgcttagtttagaaatatcctaaatagttaa--taattggttccggatcttggacttgcag-----------------
        | |||||||||||||||||| |  ||||||| ||||| |||||| |||| ||||||||      |||| |   ||  | ||  |    | | |  |||  || ||  ||    || ||   ||  ||  || ||| |   |                 
--------ATGATATGGAGCTTGATGATTCAGTCCACACAGCAATATTGACTCTGAAGGAAGGgtagga---gcatgctatttcaagtttatgcactgaaatttattttatattatttggttattttcatcttgacatttgacctatggcacatccctccaaacca

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G17810.2 (Glycine max), 5'ss of exon 9
-------------------------------------ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg---catccc-tgttgtacttgcttagtttagaaatatc---ctaaatagttaataattggttccgg-atcttggacttgcag--------
                                      |||||||| ||||||||||||||||||||  ||||||| ||||| |||||| |||| ||||||||   || |   ||| || | |     ||    | |  | || |||    ||| |  |  ||| |   |||     ||   || |    ||        
TATCATTTCTATGGTTGACTTGATTGTCCACTTACAGGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACAGCAATATTGACTCTGAAGGAAGGgtaggactaggagcatgccatttcaagtttatgcactaaataattataaaactataatgaaaatgacatgtttaactattacggtccattaggaggccca

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA15G41330.1 (Glycine max), 5'ss of exon 10
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgc--tcgcatccctgttgtacttgcttagtttagaaatatcctaaatagttaataattggttccggatcttggacttgcag--------------
 |||||||| ||||||||||||||||||||  ||||||| ||||| |||||| |||| ||||||||      |  ||| ||   | ||    || | |    | | | ||| |||    |  |  || ||    ||    | |    ||              
GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACAGCAATGTTGACTCTGAAGGAAGGgtaggagcatgacattccaagtttatgcactaaataattataaaaccttaatgaaaatgacatgtttaactattactgtccattaggaggcccaaacatt

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA03G16660.1 (Glycine max), 5'ss of exon 10
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcgcatccctgttgtacttgcttagtttagaaatatcctaaatagttaa--taattggttccggatcttggacttgcag-----------------
 |||||||| |||||||||||||||||| |  ||||||| ||||| |||||| |||| ||||||||      |||| |   ||  | ||  |    | | |  |||  || ||  ||    || ||   ||  ||  || ||| |   |                 
GTACACAGATGATATGGAGCTTGATGATTCAGTCCACACAGCAATATTGACTCTGAAGGAAGGgtagga---gcatgctatttcaagtttatgcactgaaatttattttatattatttggttattttcatcttgacatttgacctatggcacatccctccaaacca

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G17810.3 (Glycine max), 5'ss of exon 10
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg---catccc-tgttgtacttgcttagtttagaaatatc---ctaaatagttaataattggttccgg-atcttggacttgcag--------
 |||||||| ||||||||||||||||||||  ||||||| ||||| |||||| |||| ||||||||   || |   ||| || | |     ||    | |  | || |||    ||| |  |  ||| |   |||     ||   || |    ||        
GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACAGCAATATTGACTCTGAAGGAAGGgtaggactaggagcatgccatttcaagtttatgcactaaataattataaaactataatgaaaatgacatgtttaactattacggtccattaggaggccca

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 9
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcgcatccctgttgtacttgcttagtttagaaatatcctaaat-agttaataattggttccggatcttggacttgcag------------------
 |||||||| ||||||||||||||||||||  |||||||  |||| ||||||||||| ||||||||      |||| ||  ||  | ||  |    | | |  |||  || || | ||  | |||     |   | |||| |                        
GTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGACTTTGAAGGAAGGgtagga---gcatgccattttaagtttatgcactaaaagttattttatattatttggttattttcatctctttttggtcaaattttattctcctaccataagt

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: AT1G79210.1 (Arabidopsis thaliana), 5'ss of exon 10
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgt-atcgctcgcatccctgttgtacttgcttagtttagaaatatcctaaatagttaataattggt----tccggatcttggacttgcag
 ||||||||||||||||| |||||||||||||| ||||| ||||| ||||| ||||| ||||||| | |  |   | |     |  | || |||  |||  | |  ||  || |  | || |     |    ||||  ||||    |  |||
GTACACAGAAGATATGGAACTTGATGATGCCATTCACACGGCAATATTGACATTGAAGGAAGGgtgagcatttttaccaaaacttaatttactttatttccagagttcagaatttctcaaaagcctataacctccgtgtctt---ttcacag

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 10
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 5'ss of exon 10
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcgcatccctgttgtacttgcttagt--ttaga--aatatcctaaat--agttaataat--tggttccggatcttggacttgcag---------
 ||||||||||| ||||| ||||| |||||||| ||||| || ||  |||| ||||||||||||||  |  |  |||    || |  ||    |||  || |    |||  |  | |  | || ||| |  | | ||    |||  |  |  | |         
GTACACAGAAGACATGGAACTTGACGATGCCATTCACACAGCGATACTGACATTGAAAGAAGGgtaa-gtacaaatctacattattattagaaagtagttcgcctgataatcagagttcacttcatattcatagatcacactctcagtgtgactgatagattac

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|60395022|gb|DN227891.1|DN227891
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|30087632|gb|CB885838.1|CB885838
EST:     ATGGAGCTTGATGATGCCATCCACGCTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATAGAAATAGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|5607822|gb|AI901489.1|AI901489
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|33092266|gb|CF052260.1|CF052260
EST:     ATGGAGCTTGATGATGCCATCCACACCGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAGATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|18163469|gb|BM333308.1|BM333308
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|32934147|gb|CF038959.1|CF038959
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|6952543|gb|AW424611.1|AW424611
EST:     ATGGAGCTTGATGATGCCATCCACACCGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAGCAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|71445139|gb|DR826189.1|DR826189
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|14208317|gb|BG841995.1|BG841995
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|21331851|gb|BQ487232.1|BQ487232
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|149076955|gb|EE165612.2|EE165612
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|32830029|gb|CD969707.1|CD969707
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|32935438|gb|CF040250.1|CF040250
EST:     GCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: GCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|78123839|gb|DV542223.1|DV542223
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|44901282|gb|CK827827.1|CK827827
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|32930013|gb|CF034825.1|CF034825
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|30306694|gb|CD001367.1|CD001367
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|60350515|gb|DN217488.1|DN217488
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|32931688|gb|CF036500.1|CF036500
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGT
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|166618390|gb|EG254597.1|EG254597
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCA
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCA
EST: gi|60347867|gb|DN214840.1|DN214840
EST:     ATGCAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|40335710|gb|CK369780.1|CK369780
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|74232754|gb|DT640668.1|DT640668
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|60346153|gb|DN213126.1|DN213126
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|32935134|gb|CF039946.1|CF039946
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|5058832|gb|AI737308.1|AI737308
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|9951982|gb|BE638565.1|BE638565
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|5871220|gb|AW017691.1|AW017691
EST:     GCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: GCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|60356997|gb|DN223970.1|DN223970
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|166647724|gb|EG146838.1|EG146838
EST:     TGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: TGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|60339671|gb|DN206644.1|DN206644
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|148987619|gb|EE031493.2|EE031493
EST:     ATGGAGCTTGATGATGCCATCCCCACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|9566411|gb|BE475920.1|BE475920
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|89763964|gb|DY690939.1|DY690939
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|78022228|gb|DV490615.1|DV490615
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|211323463|gb|FL273342.1|FL273342
EST:     ATGGAGCTTGATGATGCCATCCACACTGMAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATT
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATT
EST: gi|5915175|gb|AW052816.1|AW052816
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|78118765|gb|DV537149.1|DV537149
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|30032061|gb|CB833912.1|CB833912
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|6952555|gb|AW424623.1|AW424623
EST:     ATGGAGCTTGATGATGCCATCCACACCGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|211258486|gb|FL474162.1|FL474162
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|5608197|gb|AI901864.1|AI901864
EST:     ATGGAGCTTGATGATGCCATCCNCACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|60339580|gb|DN206553.1|DN206553
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|50322577|gb|CO517703.1|CO517703
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|9462069|gb|BE454045.1|BE454045
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|76918600|gb|DV167369.1|DV167369
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|211323464|gb|FL273343.1|FL273343
EST:     ATGGAGCTTGATGATGCCATCCACACCGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
EST: gi|28985087|gb|BQ539334.2|BQ539334
EST:     ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG                         ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC
genomic: ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGC

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: 150

ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 121

ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 106

ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 63

ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcg ... ggacttgcagATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATACACAGAAGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGGgtatcgctcgcatccctgttgtacttgcttagtttagaaatatcctaaatagttaataattggttccggatcttggacttgcag

- - - - - - -  GGAGCT
- - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG