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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttacatgtcatattgaaaaggttacacacttttgatatcgcaatctcaagtgttatctgtcacttgactcttttccatctttataataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG

Basic information

species Zea mays
transcript GRMZM2G082390_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G082390_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g68950.1 (Oryza sativa), 3'ss of exon 1
ttacatgtcatattgaaaaggttacacacttt--tgatatcgcaatct-caagtgttatctgtcacttgactcttttccatctttataataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
   ||||  || |||   | |   ||| ||    ||| |    | |   |||  ||| | | |   |   |||  |||  |    ||     |  || | |||||||| || ||||| ||||| ||||| ||||| || || ||||||||||||||||||||||| ||||||||||| ||||||||||| |||||||| ||||
---catgatattttggttatgcagcactctcgaatgagaaattatttgacaatagttgtgtttttttgtgctcgattcgttaacaatttcctttgttctgtagGATGGGAACGAGGTATTCTTCCGCATCAAGAGATCTACGCAGCTGAAGAAGCTGATGAACGCCTATTGTGACCGTCAGTCTGTGGATATGAATGCTATTG

upper sequence: GRMZM2G082390_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g68940.1 (Oryza sativa), 3'ss of exon 1
ttacatgtcatattgaaaaggttacacacttttgatatcgcaatc-tcaagtgttatctgtcacttgactcttttccatctttataataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
 |   ||  ||  ||| | | |  || | ||||  | |     |  | |||||   | | |   ||| | |  |   | |||   | |  |  |  | ||||||||||| |||||||||||||| || ||||| || ||||| |||||||||||||||||||| || ||||| |||||||| ||||| || ||  | ||||
-tgtttgcgatgatgagatgttgccagattttttttcttttgttagtaaagtgcattttatgttttggcgccataaaaccttatcattccttgtgctgtagGATGGCAACGAGGTGTTCTTTCGTATCAAGAGATCAACCCAACTGAAGAAGCTGATGAACGCCTACTGTGATCGCCAGTCCGTGGATATCAAATCTATTG

upper sequence: GRMZM2G082390_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT5G55160.2 (Arabidopsis thaliana), 3'ss of exon 2
ttacatgtcatattgaaaaggttacacacttttgatatcgc-aatctcaagtgttatctgtcacttgactcttttccatcttta-taataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
                             ||||| ||| |  ||  ||   | | ||      |||||    |  | ||| ||  ||||  |  |||| |||||||| ||||| || |||||| | || |||||   ||| ||||| || || |||||||| ||||| |||||||| |||||||||||  | ||  | ||||
---------------------------gtttttggtattgagaaaatcgtatataatactcttcttgaag--taacaatcattggtaatttttcttgtgtagGATGGTAATGAAGTCTTCTTTAGGATCAAGAGAAGCACTCAGCTCAAAAAACTGATGAATGCTTACTGTGACCGTCAGTCTGTGGATTTCAACTCAATTG

upper sequence: GRMZM2G082390_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT5G55160.1 (Arabidopsis thaliana), 3'ss of exon 1
-ttacatgtcatattgaaaaggttacacacttttgatatcgc-aatctcaagtgttatctgtcacttgactcttttccatcttta-taataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
 ||     |    | |  |  | ||||   ||||| ||| |  ||  ||   | | ||      |||||    |  | ||| ||  ||||  |  |||| |||||||| ||||| || |||||| | || |||||   ||| ||||| || || |||||||| ||||| |||||||| |||||||||||  | ||  | ||||
gttggtacttggttggttatagataca-gtttttggtattgagaaaatcgtatataatactcttcttgaag--taacaatcattggtaatttttcttgtgtagGATGGTAATGAAGTCTTCTTTAGGATCAAGAGAAGCACTCAGCTCAAAAAACTGATGAATGCTTACTGTGACCGTCAGTCTGTGGATTTCAACTCAATTG

upper sequence: GRMZM2G082390_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT4G26840.1 (Arabidopsis thaliana), 3'ss of exon 1
----ttacatgtca-tattgaaaaggttacacacttttgatatcgcaatctcaagtgttatctgtcacttgactcttttccatctttataataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
    || || || | ||   |||  |   ||     || |  |     | |||  ||   ||| | || |   |  || |    | |||| |  |  || |||||||||| || ||||| |||||| | || |||||   ||| ||||| |||||||||||||| ||||| |||||||| || ||||||||||||||  ||||||
actctttcaggttactaccaaaagagagccatgtgattta-gttattgtttcatatgcggtctctaacgtttattgttcc---ttctata-tgtttgttttatagGATGGAAACGAGGTTTTCTTTAGGATCAAGAGAAGCACTCAGCTCAAGAAGCTGATGAATGCTTACTGTGACCGGCAATCTGTGGACATGAACTCCATTG

upper sequence: GRMZM2G082390_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv12s0059g01310.t01 (Vitis vinifera), 3'ss of exon 1
ttacatgtcatattgaaaaggttacacacttttgatatcgcaatctcaagtgttatctgtcacttg-actcttttccatctttataataataattgtat---agGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
        ||  ||  ||   ||    |||    ||||| |  | |  ||| |  |  ||  | || ||    |  |     | |  |     || |||   ||||||| ||||| || |||||  | || || ||   ||| |||||||||||||| ||||| |||||||||||||| || ||||| ||| | ||  | ||||
---gggagcaagttctaagaatt-tggactaaaaatatctctgtttgcagtttgctaggtttcctggacaagatgacgaggatgtgttgtgttttttattgcagGATGGGAATGAAGTTTTCTTCAGGATCAAAAGAAGCACACAGCTGAAGAAGCTCATGAATGCTTATTGTGACCGACAATCTGTAGACCTCAACTCGATTG

upper sequence: GRMZM2G082390_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S61_57V6.1 (Physcomitrella patens), 3'ss of exon 1
--ttacatgtcatattga-----aaaggttacacactt-ttgatatcgcaatctcaagtgttatctgtcacttgactcttttccatctttataataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
  |  || |   | |  |     |||  | |    | | ||| ||| ||||| |  ||  | || |||    |||    |  | |     | ||| |   || | ||||||||    |||||||||||| | || || ||  |  ||    ||   ||||||||||||||||| ||||||||||||||||||||        | ||||
gttggcacgctttttcaagggataaaactaaggtgcctgttggtat-gcaatatacagaataatatgttctgtgagc--tgacga-----aaaatcagtgttttgtagGATGGAGGGGAGGTGTTCTTTAGGATCAAAAGCACTGCCACTTTGCGCAAGCTGATGAACGCTTACTGTGACCGCCAGTCTGTGGATCCTTCCTCTATTG

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|211433883|gb|FL042042.1|FL042042
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211092255|gb|FL379380.1|FL379380
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211284118|gb|FL041939.1|FL041939
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTANGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAG
EST: gi|211213087|gb|FL091263.1|FL091263
EST:     AGAAGCCCGCGGA-GG-GGCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211426082|gb|FL041995.1|FL041995
EST:     AGAAGCCCGCGGAGGG-SGCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211433881|gb|FL042040.1|FL042040
EST:     AGAAGCCCGCGGAGGGCGNCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCC
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCC
EST: gi|211439085|gb|FL042077.1|FL042077
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGCCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211433885|gb|FL042044.1|FL042044
EST:     AGAAGCCCGCGGAGGG-SGCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211284124|gb|FL041945.1|FL041945
EST:     AGAAGCCCGCGGAGGG-GGCG-CCACATCAACCTTAAGGTCAAAGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211289244|gb|FL450233.1|FL450233
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211282314|gb|FL041932.1|FL041932
EST:     AGAWKCCCGCGGAGGGCGNCGCC-ACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211285926|gb|FL041955.1|FL041955
EST:     GAWGCCCGCGGAGGGSGGTCGCC-ACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: GAAGCCCGCGGAGGGCGG-CGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211436489|gb|FL042062.1|FL042062
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211405134|gb|FL136265.1|FL136265
EST:     AGAAGCCCGCGGAGGG-GNCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211426089|gb|FL042002.1|FL042002
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211284127|gb|FL041948.1|FL041948
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211420882|gb|FL041974.1|FL041974
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCANGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAANAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211057702|gb|FL415599.1|FL415599
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211210510|gb|FL091239.1|FL091239
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211423481|gb|FL041990.1|FL041990
EST:     AGAAGCCCGCGGAGGGSG-CGCC-ACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGMTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|67018376|gb|CO447125.1|CO447125
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211402603|gb|FL136260.1|FL136260
EST:     AGAAGCCCGCGGA-GG-GGCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211436487|gb|FL042060.1|FL042060
EST:     AGAAGCCCGCGGA-GGSSGCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211428689|gb|FL042021.1|FL042021
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211282307|gb|FL041925.1|FL041925
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211436483|gb|FL042056.1|FL042056
EST:     AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211439078|gb|FL042070.1|FL042070
EST:     AGAAGCCCGCGGAGGGC-GCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
EST: gi|211405131|gb|FL136262.1|FL136262
EST:     AGAAGCCCGCGGAGGG-GTCG-CCACATCAACCTTAAGGTCAAGGGACAG                         GATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG
genomic: AGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAG

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: 2289

ATCGCCGGAAAACTAACCCCTAACGATGTCTGGAGCCGGCGAGGAGGACAAGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 943

ATCGCCGGAAAACTAACCCCTAACGATGTCTGGAGCCGGCGAGGAGGACAAGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 596

ATCGCCGGAAAACTAACCCCTAACGATGTCTGGAGCCGGCGAGGAGGACAAGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1791

ATCGCCGGAAAACTAACCCCTAACGATGTCTGGAGCCGGCGAGGAGGACAAGAAGCCCGCGGAGGGCGGCGCCCACATCAACCTTAAGGTCAAGGGACAGgtcagcacgc ... aattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagtgttatctgtcacttgactcttttccatctttataataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG
                acttgac  putative branch site (score: 1791)
                         ttttccatctttataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttacatgtcatattgaaaaggttacacacttttgatatcgcaatctcaagtgttatctgtcacttgactcttttccatctttataataataattgtatagGATGGCAATGAGGTGTTCTTTCGCATAAAGAGGTCCACCCAGCTGAAGAAGCTGATGAACGCTTATTGTGACCGCCAGTCTGTGGACATGAATGCCATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT