Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgccgtgttctatagatagatagcttcactctgatctgtccgggtcgagtggctcagtaactctactaccatgcatgcatgtgtgtgtgcag

Basic information

species Zea mays
transcript GRMZM2G317938_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G317938_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g03410.1 (Oryza sativa), 5'ss of exon 5
CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgccgtgttctatagatagatagcttcactctgatctgtccgggtcgagtggctcagtaactctactaccatgcatgcatgtgtgtgtgcag
 ||| | || |||||||||||||| |||||||| || || || ||||||||||| || || || ||||  || || |||||||| |||||  |||||||||| | ||  | |      |   |    |   ||   | |    ||  |  ||   |||  |  ||| |   || |  | ||                 
GATGTTAAATGAGAGGAGCGATGTTTATAGCTTTGGAGTACTTATAATGGAGATTATAACGGGTAGATCACCAGTAGATTACACCAGGGCACCTGGAGAGgt-cagtatcctacctattctttcatgaatctcttccaggatcgttggcatctgatggagc--taaattgtcttcttttcag----------------

upper sequence: GRMZM2G317938_T01 (Zea mays), 5'ss of exon 5
lower sequence: PP1S568_2V6.1 (Physcomitrella patens), 5'ss of exon 6
CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgt-gccgtgccgtgttcta----tagatagatagcttcactc--tgatctgtccgggtcgagtggctcagtaactctactaccatgcatgcatgt-gtgtgtgcag----------------------------------------
| ||||||| ||| | ||||||||||| ||||| || |||||  | |||||||||||||| ||  ||  ||||||||||||||   | || || |||||||| |    |    ||| ||    |    |  || |   | ||  |  ||||| | | |   ||| |||| |     |  |    |||| | | |  |||||   |                                         
CCTGCTGAATGAGCGAAGCGATGTGTACAGCTTTGGGGTGCTTCTCATGGAGATCATCACGGGGCGAGATCCTGTGGATTACAACCGCGCTGCGGGAGAGgtaggaacgtttggttttagtcgtcaccacttaacagaaatcaatcttctgtgctgatattgtg-ctcaatgcaagtg-tggggtgcacgaaggccgtgtggctaacagtgcaatctacgtgatatgttacaaatatgacctgcag
















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|28986497|gb|CB351167.1|CB351167
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|110525123|gb|EE029307.1|EE029307
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|50327269|gb|CO522395.1|CO522395
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18168013|gb|BM337853.1|BM337853
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|17930860|gb|BM267820.1|BM267820
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|71449920|gb|DR830970.1|DR830970
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|148948180|gb|EC893695.2|EC893695
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|148974556|gb|EE025344.2|EE025344
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|17930959|gb|BM267919.1|BM267919
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18164788|gb|BM334627.1|BM334627
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|17930128|gb|BM267088.1|BM267088
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|89757580|gb|DY687122.1|DY687122
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|71774236|gb|DR972114.1|DR972114
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18162265|gb|BM332104.1|BM332104
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGCCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18176160|gb|BM351214.1|BM351214
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18174123|gb|BM349511.1|BM349511
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|101382927|gb|EB813517.1|EB813517
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|71761679|gb|DR959616.1|DR959616
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18175008|gb|BM350396.1|BM350396
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|78091402|gb|DV519776.1|DV519776
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18171117|gb|BM340957.1|BM340957
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18165284|gb|BM335123.1|BM335123
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|88747895|gb|DY532036.1|DY532036
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|50332716|gb|CO527842.1|CO527842
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18168209|gb|BM338055.1|BM338055
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18166054|gb|BM335893.1|BM335893
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|148961318|gb|EE012046.2|EE012046
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|110208205|gb|EC890102.1|EC890102
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|16921921|gb|BM075352.1|BM075352
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18170385|gb|BM340225.1|BM340225
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18163903|gb|BM333742.1|BM333742
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGACGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18165965|gb|BM335804.1|BM335804
EST:     ATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAAAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: ATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|76917499|gb|DV166864.1|DV166864
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18172936|gb|BM348324.1|BM348324
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|110195160|gb|EC877057.1|EC877057
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|76913502|gb|DV165156.1|DV165156
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
EST: gi|18164086|gb|BM333925.1|BM333925
EST:     AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAG                         GTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG
genomic: AGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAG

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), 48 (downstream exon)
Score: 73

CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAGGAGGTAGTGGACAGTAAGATGGCCGAGAGGCCTCCTCCCAAGACGCTGA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 74

CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAGGAGGTAGTGGACAGTAAGATGGCCGAGAGGCCTCCTCCCAAGACGCTGA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 58

CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAGGAGGTAGTGGACAGTAAGATGGCCGAGAGGCCTCCTCCCAAGACGCTGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 67

CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgcc ... gtgtgtgcagGTGCAGCTGGTGGAGTGGCTCAAGAACATGGTGGCCGAGAGGAAAGCGGAGGAGGTAGTGGACAGTAAGATGGCCGAGAGGCCTCCTCCCAAGACGCTGA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGCTGAACGAGAGGAGCGATGTGTATAGCTTCGGCGTGCTGATAATGGAGATCATCACCGGCAGATGTCCTGTGGATTACACAAGGGCGGCTGGAGAGgtgccgtgccgtgttctatagatagatagcttcactctgatctgtccgggtcgagtggctcagtaactctactaccatgcatgcatgtgtgtgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA