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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag

Basic information

species Zea mays
transcript GRMZM5G829894_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g05630.1 (Oryza sativa), 5'ss of exon 6
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
|||| ||||| || ||||||||||||||||| ||||| |||||||||||||| || |||||||||||||| || ||||| || || ||||||||||| | |     | |||||  |||  | |       | ||  ||  |     |  ||  | |     |   |  | ||  |    |    |  ||     |||||                                                                                     
GGACGTGGCGTGTTGGTGGTGTTCTTGCTGTTTCTCGAGCATTTGGTGATAAGCTATTGAAGCAGTATGTAGTTGCTGATCCAGAGATCAAGgtttgacttaa---tttgtttgctta--gctctcaactaaagccttctatctgcaaaataatattcatcatcgtaattggcattcccatgcatgttac---tctaaag------------------------------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G06250.1 (Glycine max), 5'ss of exon 7
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| || ||| |||| || |||||||||||||| ||||| ||||||||||||| |||| |||||||||||||||| ||||| || |||||  |||| ||||    ||| ||| ||  |||||     ||  ||   | ||  | |  |||       |       | || |    | |    | ||   ||||||   |                                                                                       
GAACTTGGAGAGTTGGAGGTGTTCTTGCTGTTTCTCGTGCATTTGGTGATAGACTCCTGAAGCAGTATGTTGTTGCTGATCCAGAAATTCAGgtatgtc---tact-atggttagttacgtccattcttgaatatcttatatagttatggattcatctcaacctgtgctcatatagggtgcatg-gttaagtgtaca---------------------------------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA14G12220.1 (Glycine max), 5'ss of exon 6
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttat--gttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| || ||| |||| ||||| ||||||||||| || || ||||||||||||| |||| |||||||||||||||| ||||| || |||||| |||| |||     |  |      |  |||   |  | |    |||  || | ||||  |||    | || |    ||| |     ||| |    | || ||  ||  |                                                                                        
GAACTTGGAGAGTTGGTGGAGTTCTTGCTGTTTCACGTGCATTTGGTGATAGACTCCTGAAGCAGTATGTTGTTGCTGATCCAGAAATCCAGgtgtgtttctaatatggtgaatccattcttggatatttc-atatattcttagactcatctcaatctgtgtctgtatag----attgcatgact-tagtatatggtt----------------------------------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G06310.1 (Glycine max), 5'ss of exon 6
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtc----atg--cacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggg---gttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| || ||| |||| || |||||||||||||| ||||| || |||||||||| |||| |||||||||||||||| ||||| || |||||  |||| ||||    |||   | |||  |    |   | ||       |||||| |   ||   |||      || |   |||| | | |   | |  | | ||||                                                                                                   
GAACTTGGAGAGTTGGAGGTGTTCTTGCTGTTTCTCGTGCGTTTGGTGATAGACTCCTGAAGCAGTATGTTGTTGCTGATCCAGAAATTCAGgtatgtctacaatggttagttacatccattcttgaatatgttatatagttat--ggattcatctcaacctgtgctcatatagggtgcacggttcacatttgt---------------------------------------------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G33690.2 (Glycine max), 5'ss of exon 7
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| || ||| |||| ||||| ||||||||||| || || ||||||||||||| |||| |||||||||||||||| ||||| || |||||| ||||   |            || || || ||    ||   ||   || |  ||  | ||||   ||    || |  | ||    |||     ||||   ||||| | |    |   |                                                                             
GAACTTGGAGAGTTGGTGGAGTTCTTGCTGTTTCACGTGCATTTGGTGATAGACTCCTGAAGCAGTATGTTGTTGCTGATCCAGAAATCCAGgtgcat------------ttctaatatggtgaatcca-atccattcttggatatttcatatattcttagattcagatgaatctgt--gtctgtatagagtgcatgatttagtata-----------------------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT4G31750.1 (Arabidopsis thaliana), 5'ss of exon 7
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgt-ttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| |||||| |||| || || ||||||||||| ||||| |||||||| ||||   | ||||||||||||||||| ||||| || || ||  |||| ||| | |      |   | |  | |    | |    |  |    |  |   | | |   ||  |   ||  ||    || | | ||    ||   | |                                                                                            
GAACATGGAGAGTTGGAGGAGTTCTTGCTGTTTCTCGTGCATTTGGCGATAGGTTGTTGAAGCAGTATGTTGTTGCTGATCCGGAGATACAGgtattgactttttgccaaaatctcctcctatatattaaaaatgccactttgttat-taacaattgaacataacctgcattggatttcaatagttagctact--------------------------------------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0008g07320.t01 (Vitis vinifera), 5'ss of exon 7
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| || ||| | || || |||||||||||||| ||||| ||||||||||||| ||||||||||||||||||||| ||||| || |||||| |||| ||    || || |   ||       ||| ||   | |||||     ||| ||   ||  |  || |||| |  ||  |||  |||  | |   ||| ||      | |  || |                                                                           
GAACTTGGAGGGTTGGGGGTGTTCTTGCTGTTTCTCGTGCATTTGGTGATAGACTCTTGAAGCAGTATGTTGTTGCTGATCCAGAAATCCAGgtctg----gctctgagagtt-------gatagtaaagctagtt-----gacataatttgcatctagcgaattttatgcagtta-aaatctattccaagggcactcctaggcagaat---------------------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S17_286V6.1 (Physcomitrella patens), 5'ss of exon 6
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcattta-gcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| || ||||| |||||||||||||||||||||||||| |||||||| ||    ||  ||||  | ||||| |||||||| || |||||  ||||    |    | ||   | |  ||     |  ||   |  | | |  |    | |    |    || |  | |  |||  |||  |||  |   || |   ||  |  |     |    |  |||| |||                                                              
GCACTTGGCGTGTGGGTGGTGTTCTTGCTGTCTCTCGGGCATTTGGGGACCGCCTTCTGAAAAAATATGTAGTCGCTGAGCCAGAAATTCAGgtggagcgcaaagtt---tctcgtt-tacctcctcactacggatgtctat-tttgttgcagaacaagtggctctaatggatttgggaaca-gctctatgcagcttcatttacacttgtttttttttatgcag-------------------------------------------------------------

upper sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S225_37V6.1 (Physcomitrella patens), 5'ss of exon 6
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttatta-cggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag
| || ||||| || ||||| ||||||||||| ||||| ||||||||||||   ||  ||||  | |||||||| || || || |||||  ||||| |     |  || ||   | ||| |  | |       | |  |||||||  ||| |      | ||   |||| ||  | | |   |||       |   || |   |   | ||||    |  ||                                                                
GTACTTGGCGTGTAGGTGGCGTTCTTGCTGTGTCTCGGGCATTTGGTGATCGGCTGCTGAAAAAATATGTTGTTGCCGAACCAGAAATTCAGgttagctcatcgtttctgccctcttagcacaataattaacttgaatttcagagttatta------gtggatgtatgctgaagatat---cttt------gcttctgatttttttgtttcc--tgtgcag----------------------------------------------------------------

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|60398872|gb|DN231688.1|DN231688
EST:     TGGTGAATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TGGTG-ATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60349103|gb|DN216076.1|DN216076
EST:     TGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|149001340|gb|EE038630.2|EE038630
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60358725|gb|DN225698.1|DN225698
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60359012|gb|DN225985.1|DN225985
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60351393|gb|DN218366.1|DN218366
EST:     CTTGAAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: CTTG-AAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60352815|gb|DN219788.1|DN219788
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTGGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60337634|gb|DN204607.1|DN204607
EST:     GCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: GCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60351806|gb|DN218779.1|DN218779
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|74238817|gb|DT646731.1|DT646731
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60400081|gb|DN232888.1|DN232888
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60358897|gb|DN225870.1|DN225870
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|16925989|gb|BM079057.1|BM079057
EST:     TATGTTGTCGCTGAGCCTGAAATCAAG                         AAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|149106826|gb|EE188723.2|EE188723
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|32857745|gb|CD997426.1|CD997426
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCTTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|32857201|gb|CD996882.1|CD996882
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|71326203|gb|DR799792.1|DR799792
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|149099824|gb|EE185877.2|EE185877
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60399036|gb|DN231852.1|DN231852
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|71442169|gb|DR823219.1|DR823219
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|31909593|gb|CD650996.1|CD650996
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|13491100|gb|BG517864.1|BG517864
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|78119894|gb|DV538278.1|DV538278
EST:     TAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
EST: gi|60341073|gb|DN208046.1|DN208046
EST:     GATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGG
genomic: GATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagG-AGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGG
EST: gi|149107349|gb|EE189228.2|EE189228
EST:     TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAG                         GAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA
genomic: TTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGA

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: 930

GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGACTCTGGGATGTTGTCACTAATGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 673

GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGACTCTGGGATGTTGTCACTAATGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 876

GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGACTCTGGGATGTTGTCACTAATGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 571

GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatg ... ttacaatcagGAGGAGGTGGTCGACAGCTCCCTTGAATTCCTCATCCTTGCTAGTGATGGACTCTGGGATGTTGTCACTAATGAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACATGGCGAGTGGGTGGTGTTCTTGCTGTCTCTCGCGCATTTGGTGATAAACTCTTGAAGCAGTATGTTGTCGCTGACCCTGAAATCAAGgtttgtcatgcacttatgttttattacggattgtcgggatagtttttcagacctatcatggtttgagggaatatggtggggttgtaaacttgtaataagtgcctaaaaatggggattccatcatttagcaatgtcatacatcacccacaccccctgtagccatctgaaaacgatttttgctgttacaatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC