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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttttgtaacaaaagatgctactaaattataagacatcaatgcttaattttgtttccttatttacag

Basic information

species Zea mays
transcript GRMZM2G121942_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121942_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os08g34480.1 (Oryza sativa), 5'ss of exon 3
-----CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttttgtaacaaaagatgctactaaattataagacatcaatgcttaattttg----tttccttatttacag
     ||| |||||||||||||| ||||| ||||||||||||||||| |||||||| || |||||||||||||| |||  | ||||||||||||     | |||    || |||  |   |      ||   | |  |     |||| | |||    |||| ||  || |||
GCTAGCGACAGGTTCAACATAAATTCTCAACTTGAGCATCTTCAAGCGAAATATGTGGGCACAGGGCATGCTGACTTGAATCGATTgtaagtatatc--tttttccaaaataaacaaaaatgtgttgttggga-atgtagtaacttagtattgaggatttcttttattgcag

upper sequence: GRMZM2G121942_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G40200.1 (Glycine max), 5'ss of exon 2
-----CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttt--tgtaacaaaagatgctactaaattataagaca--tcaatgcttaattttgtttccttatttacag------------
      |||||||| ||||| || || |||||||||||||| ||||||||||||||||| || || ||||| ||||||   ||||||| ||| ||    ||| |   | |  |  ||  |  |  | | || ||| |    |   |      || | |||| || | | |              
GCCAGTGATAGGTTTAACATCAATTCCCAGCTTGAGCATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttctctctctctcccttttccccaattttttgtttatttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgtgtgtgtgcag

upper sequence: GRMZM2G121942_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G17590.1 (Glycine max), 5'ss of exon 2
-----CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttttgtaacaaaagatgctactaaattataagacatcaatgcttaattttgtttccttatttacag--------------
      |||||||| ||||| || |||||||| |||||||| ||||||||||||||||| || || ||||||||||||   ||||||| ||| | ||  ||| | |    |||    |  |  ||| ||  ||   ||  ||  | |  ||| ||| ||| |     |              
GCTAGTGATAGGTTTAACATCAATTCTCAGCTCGAGCATCTCCAAGCCAAATATGTTGGAACTGGCCATGCTGATTTGAACAGATTgtgagttttct-ctctctcttccccaattttttttgttaattttaaaactatttat--taatcttttttttcttttgcgtgggtgtgtgtctgcag

upper sequence: GRMZM2G121942_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT3G23325.1 (Arabidopsis thaliana), 5'ss of exon 2
-----CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttttgtaacaaaagatgctactaaattataagac-----atcaatgcttaattttgtttccttatttacag-
      |||||||| |||||||| ||||||||||||||||||||||| || |||||||||||||| ||||| ||||||   |||||||||||||  |   ||||||||       |||  | |   |||  || |      |   ||    |||||||  |  || | |     
GCAAGTGATAGGTTTAACATAAATTCTCAGCTTGAGCATCTTCAAGCTAAGTATGTTGGTACAGGTCATGCAGATTTGAGCAGATTgtaagtatttttcactttttgttt----ggatttttcaggattccaaaattgtgaacttattgaaaattttgaatgtttttgtgttag

upper sequence: GRMZM2G121942_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT4G14342.1 (Arabidopsis thaliana), 5'ss of exon 2
-----CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttttgtaacaaaag------atgctactaaattataagacatcaatgcttaattttgtttccttatttacag
      |||||||| ||||| || ||||||||||||||||||||||| ||||||||||| || || ||||||||||||  |||||||| ||| || | |  |||| ||    |||       ||||       ||||  |  |  |||   |    ||| ||       |||||
GCAAGTGATAGGTTTAACATCAATTCTCAGCTTGAGCATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttcttttgattttagtgttcaaatttttatatgcattgtttttattggctactaatttgtggaattggtttaaatggtacag

upper sequence: GRMZM2G121942_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv05s0049g01230.t01 (Vitis vinifera), 5'ss of exon 2
-----CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttttgtaacaaaagatgctactaaatt-ataagacatcaatgcttaattttgtttccttattta--cag
      |||||||| || || ||||| |||||||||||||| ||||| ||||||||||| || || |||||||| |||  ||||||||||||| ||| || |||| |        |     | |  ||| ||| |   |   | ||||  |||| |   || | |   |||
GCCAGTGATAGGTTTAATATTAACTCCCAGCTTGAGCATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacctattattttagatttggttgtcatcattttatttataggtttttctttcttagatttgatgttttgtgtgggcag

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|211191926|gb|FL276014.1|FL276014
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191933|gb|FL276021.1|FL276021
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191922|gb|FL276010.1|FL276010
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|19057527|gb|BM736194.1|BM736194
EST:     AGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCC
genomic: AGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191923|gb|FL276011.1|FL276011
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211088952|gb|FL225885.1|FL225885
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|9566444|gb|BE475953.1|BE475953
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|45847222|gb|CN071165.1|CN071165
EST:     CATCTTCAAGCCCAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191929|gb|FL276017.1|FL276017
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|78111599|gb|DV529996.1|DV529996
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191928|gb|FL276016.1|FL276016
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|18163701|gb|BM333540.1|BM333540
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|19436871|gb|BM953281.1|BM953281
EST:     AGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCA
genomic: AGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|101402755|gb|EB822903.1|EB822903
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191930|gb|FL276018.1|FL276018
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|149110102|gb|EE293919.2|EE293919
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211194322|gb|FL276024.1|FL276024
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTNGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|5108428|gb|AI740141.1|AI740141
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211194323|gb|FL276025.1|FL276025
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|32864255|gb|CF003937.1|CF003937
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|18171587|gb|BM341427.1|BM341427
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191925|gb|FL276013.1|FL276013
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211194325|gb|FL276027.1|FL276027
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|149076642|gb|EE165281.2|EE165281
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211194324|gb|FL276026.1|FL276026
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|32943241|gb|CF048060.1|CF048060
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGGCAGCTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211088951|gb|FL225884.1|FL225884
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|60350040|gb|DN217013.1|DN217013
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191934|gb|FL276022.1|FL276022
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211191924|gb|FL276012.1|FL276012
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|211194321|gb|FL276023.1|FL276023
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|32937147|gb|CF041966.1|CF041966
EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
EST: gi|56462064|gb|CK986362.1|CK986362
EST:     ACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: ACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

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 3 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 3

CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA


Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 4

CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA


Block sizes: 49 (upstream exon), 43 (downstream exon)
Score: 3

CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcctgttctttttgtaacaaaagatgctactaaattataagacatcaatgcttaattttgtttccttatttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT