Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaatagtaaattttaaatcttatttagaatggtatttagttgtttgggttccttctctagcctttcttaacaccatctatattcactctctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA

Basic information

species Zea mays
transcript GRMZM2G021742_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G021742_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g13990.3 (Oryza sativa), 3'ss of exon 2
gaatagtaaattttaaatct-tatttagaatggtatttagttgtttgggttccttctctagcctttcttaacaccatctatattcactct-ctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA
 |||| | | | | |  ||  |||||      |  |||  ||  ||   ||| ||||| ||| | | |||||||    | |  | ||| | ||||| || ||||||| |||||||||||||||||||| || |||||||||||||||||||| |||||||| |||||||||||||||||||||||  ||||||| |||||||
-aatactcattctcatttcagtatttgacccagcttttgttttattatcttctttctccagcatgt-ttaacacttctttttgttactttgctctcaaatagGACCAATTTGACACAATTGACTTGTCAGACAATGAGATTGTCAAGCTTGAGAACTTCCCGTACTTGAATCGTCTTGGCACTCTGTTAGTTAACAATAACA

upper sequence: GRMZM2G021742_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G18440.2 (Glycine max), 3'ss of exon 3
------------------------------------------------gaatagtaaattttaaatcttatttagaatggtatttagttgtttgggttccttctctagcctttcttaacaccatctatattcactctctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA
                                                | |||    ||| | | |||   ||   ||    || | || |       | |  ||  |   ||| |||    || |  | |   | |  ||    |||||||| ||||||||||| ||||| || || ||||||||||| || ||||||||  | |||||  | || ||  | |||||  | ||  |||| || ||||
gtgcaaaatttaatcttccttcctttcagtttccccttatatttgaaagtatatattattatgattctctctttatatatgcttcaattataaaaaaacttcatcctggtgttcataa----atttgcaatggattttcct---gcagGACCAATTTGACACAATAGACTTATCTGACAATGAGATTGTTAAACTTGAAAATGTACCATATCTTAACCGGTTGGGCACAATGCTCATTAACAACAACA

upper sequence: GRMZM2G021742_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G24350.2 (Glycine max), 3'ss of exon 3
-----------------------gaatagtaaattttaaatcttatttagaatggtatttagttgt----ttgggttccttctctagcctttcttaacaccatctatattcactctctc-----------------tctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA
                             | | |||    |  |||||  || | ||| | ||| |     ||  ||| |        | ||  ||| |  ||  ||  |     |||                  ||   |||||||| || |||||||| ||||| || || |||||||||||||| ||||||||  | |||||  | || ||  | || ||  | ||  |||| || ||||
gtgcacaatttaatcttcttcccttccttttagtttccccttatatttgaaaggatatatcgttatgactctgtcttcatatgtgcttcatttataaaaaaattcatccttgtgttcttaaatttgcaatggattttcctgcagGACCAATTCGACACAATAGACTTATCTGACAATGAGATTGTCAAACTTGAAAATGTACCATATCTTAACCGGTTGGGTACAATGCTCATTAACAACAACA

upper sequence: GRMZM2G021742_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT1G09760.1 (Arabidopsis thaliana), 3'ss of exon 2
----------gaatagtaaattttaaatcttatttagaatggtatttagttgtttgggttccttctctagcctttcttaacaccatctatattcactctctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA
          |||  |       ||||| || | |    | |  ||  || | ||   | |    |  ||  | ||| |  |  |  | | ||   |  ||     |||||||||||| || || |||||  |||| ||||| ||||| || ||||| ||||||||||||||| | || ||| | || ||| ||||  | ||||| ||  
tcttctctaagaaaggcctcccataaattttgtgt----ttggcttaggtagattatttgcaggtttgaggttctctaatta--acttgtcttggtttgctt----acagGACCAGTTCGATACCATTGATCTGTCTGATAACGAGATAGTTAAGCTAGAAAACTTCCCATACCTCAACCGTTTAGGAACTTTACTCATCAATAACAATC

upper sequence: GRMZM2G021742_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0150g00590.t01 (Vitis vinifera), 3'ss of exon 2
gaatagtaaattttaaatcttatttagaatggtatttagttgtttgggttcctt-ctctagcctt----tcttaacaccatctatattcactctctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA
   |   || | ||  |    |||||   | || |  || |  ||| |||     || ||   ||      ||  ||  || | |||  |    |||  |  |||||||| ||||| || ||||| ||||| || ||||||||||||||||| |||||||| || ||  | |||||  | || ||| | ||  | || || || |
-ctttaaaattgtttcagtggattta--cttgtttgcagcttcttgtgttttgcactttaatgttgttgcttttgcatgatttttat--atcggctcattggcagGACCAATTTGATACCATTGATTTGTCTGACAATGAGATTGTCAAGCTCGAAAACTTGCCTTATCTTAATCGGTTGGGTACTTTGCTTATCAACAACAATA

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|211426971|gb|FK970232.1|FK970232
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426968|gb|FK970229.1|FK970229
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|93011955|gb|EB637475.1|EB637475
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429560|gb|FK970248.1|FK970248
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211424364|gb|FK970219.1|FK970219
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429551|gb|FK970239.1|FK970239
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211437351|gb|FK970281.1|FK970281
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|148969290|gb|EE020060.2|EE020060
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429559|gb|FK970247.1|FK970247
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432149|gb|FK970251.1|FK970251
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426960|gb|FK970221.1|FK970221
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426962|gb|FK970223.1|FK970223
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211424362|gb|FK970217.1|FK970217
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429561|gb|FK970249.1|FK970249
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434758|gb|FK970271.1|FK970271
EST:     GACAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: G-CAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432156|gb|FK970258.1|FK970258
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434764|gb|FK970277.1|FK970277
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|78117952|gb|DV536339.1|DV536339
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434752|gb|FK970265.1|FK970265
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429555|gb|FK970243.1|FK970243
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434763|gb|FK970276.1|FK970276
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211424363|gb|FK970218.1|FK970218
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434762|gb|FK970275.1|FK970275
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429550|gb|FK970238.1|FK970238
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426965|gb|FK970226.1|FK970226
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434757|gb|FK970270.1|FK970270
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432160|gb|FK970262.1|FK970262
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211424361|gb|FK970216.1|FK970216
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432159|gb|FK970261.1|FK970261
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429557|gb|FK970245.1|FK970245
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429553|gb|FK970241.1|FK970241
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426959|gb|FK970220.1|FK970220
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432151|gb|FK970253.1|FK970253
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432161|gb|FK970263.1|FK970263
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432154|gb|FK970256.1|FK970256
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429552|gb|FK970240.1|FK970240
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434766|gb|FK970279.1|FK970279
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432155|gb|FK970257.1|FK970257
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426964|gb|FK970225.1|FK970225
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGAYAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432158|gb|FK970260.1|FK970260
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429558|gb|FK970246.1|FK970246
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434759|gb|FK970272.1|FK970272
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGANCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|50326108|gb|CO521234.1|CO521234
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432162|gb|FK970264.1|FK970264
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|60340700|gb|DN207673.1|DN207673
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434765|gb|FK970278.1|FK970278
EST:     GCAACAAGATMGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429556|gb|FK970244.1|FK970244
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211424360|gb|FK970215.1|FK970215
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434754|gb|FK970267.1|FK970267
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|76292483|gb|DV032051.1|DV032051
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426961|gb|FK970222.1|FK970222
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434761|gb|FK970274.1|FK970274
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211429547|gb|FK970235.1|FK970235
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432157|gb|FK970259.1|FK970259
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211426969|gb|FK970230.1|FK970230
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211434760|gb|FK970273.1|FK970273
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|71319736|gb|DR796618.1|DR796618
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA
EST: gi|211432153|gb|FK970255.1|FK970255
EST:     GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAG                         GACCAGTTTGACACAATTGACTTGTCGGAYAATGAGATTGTCAAGCTTGAA
genomic: GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAA

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: 41 (upstream exon), 49 (downstream exon)
Score: 375

GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA


Block sizes: 41 (upstream exon), 49 (downstream exon)
Score: 164

GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA


Block sizes: 41 (upstream exon), 49 (downstream exon)
Score: 142

GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA


Block sizes: 41 (upstream exon), 49 (downstream exon)
Score: 171

GCAACAAGATCGCCGTCATCGAGAATGTCGGAGCCACCGAGgtgagagctc ... tctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggttccttctctagcctttcttaacaccatctatattcactctctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA
                   tcttaac  putative branch site (score: 171)
                                  tattcactctctctct  putative PPT
                             atctatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaatagtaaattttaaatcttatttagaatggtatttagttgtttgggttccttctctagcctttcttaacaccatctatattcactctctctctaacagGACCAGTTTGACACAATTGACTTGTCGGATAATGAGATTGTCAAGCTTGAAAACTTCCCATACTTGAATCGTCTTGGCACTCTACTAGTTAATAATAACA

- - - - - - - - - - - - - - - - - - - -ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caccatc