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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcatcttcagttatgctcgcccttctataataaattgaatcatctagctgttcaagttgccaagtctaactttaaaaaataaccttttctatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG

Basic information

species Zea mays
transcript GRMZM2G106928_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G106928_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g44770.2 (Oryza sativa), 3'ss of exon 3
------tgcatcttcagttatgctcgcccttctataataaattgaatcatctagctgttcaagttgccaagtctaactttaaaaaataaccttttctatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG
      |    ||||| | ||   |     || ||   |  |   ||   | |  | | |||    |  |  || || ||| |    ||   |||   || | |||||||||||||||| ||||||||| |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| |||||||| |
taatcctaacccttcattcatttccaaatctcaatcccacctcacatttccca-ttatccaaa---cacaccctcacattacatggcaaaacttt--gtcctgcagGACCACATTTTAACCCAAACAATTTGACGCACGGTGCACCAGAAGATGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCCAATGCTGAAG

upper sequence: GRMZM2G106928_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA12G30260.1 (Glycine max), 3'ss of exon 3
----tgcatcttcagttatgctcgcccttctataataaattgaatcatc-tagctgttcaagttgccaagtc--taactttaaaaaataaccttttctatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG
     ||  |||   || |  |      ||| |  | | ||     |   | | || | ||||||  |   |  |  |||    | ||    |    ||| |   ||| |||||||| ||||| || || || |  || ||||| || || ||  || | || ||||||||||||||||||||||| ||||| ||||| || |
gtaaggccacttagtttttatttatttatctttggttagttttggtactatggttgatgaagttgtaagagcatttgcttcttgatattgaatgacatattt---agGGCCACATTTCAATCCTAATAAACTCAAACATGGTGCTCCGGAGGATAAAATTCGCCATGCGGGTGACCTGGGAAACATAGTTGCTAATGCCGATG

upper sequence: GRMZM2G106928_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G19840.3 (Glycine max), 3'ss of exon 3
----tgcatcttcagttatgctcgcccttctataataa-attgaatcatctagctgt--tcaagttgccaagtctaactttaaaaaataaccttttc---tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG
     ||| ||  |  |  | |      | |     |   ||   |  ||| || ||  ||  |||     |  ||| ||  ||   |    || |    |  |||  |||| ||||||||||||| || ||  |||| || ||||| || || || |||||||||||||||||||||||||||||||| ||||| ||||| ||||
gtaaggcagctggaacttagtttcaaagtttgcttcactgttttcttttcttgccgtggtccggttcaattgagtaagttacaagggtttgtttcttgaatgacttttagGAGCACATTTTAATCCTAATAAATTGACACATGGTGCTCCTGAGGATGAAGTCCGTCATGCGGGTGACCTGGGAAACATAGTTGCTAATGCAGAGG

upper sequence: GRMZM2G106928_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA12G08650.1 (Glycine max), 3'ss of exon 3
----------tgcatcttcagttatgctcgcccttctataataaattgaatcatctagctgttcaagttgccaagtctaactttaaaaaataaccttttctat--cttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG
             | ||| | ||    |    ||||| |  |   ||   || |   |  ||||   |    |     |  |  ||    |    | ||  ||  ||| ||||| ||||||||||||| || ||  |||| || ||||| || || || |||||||||||||||||||||||||||||||| ||||| ||||| ||||
gtaaggctgccagaccttaatttcaatttttgcttcttttttttctt--ttcttgccgtggttcggttcaatagagtaagttacaagggtttgtttcttgaatgactttcagGAGCACATTTTAATCCTAATAACTTGACACATGGTGCTCCTGAGGATGAAGTCCGTCATGCGGGTGACCTGGGAAACATAGTTGCTAATGCAGAGG

upper sequence: GRMZM2G106928_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT2G28190.1 (Arabidopsis thaliana), 3'ss of exon 3
tgcatcttcagttatgctcgcccttctataataaattgaatc-atctagctgtt-caagttgccaagtctaactttaaaaaataaccttttctatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG
           | ||       |  || |   | |||   |  ||   | |||    | ||||||| |   |     | |  |   ||| | | ||||  |||||||||||| || || |||||  |||| ||||| || |||||||| ||   |||||||||||||||||||||||||||   ||| ||||| || |
---------gttaatagcaaaacccctgtggcagattcttttgatactgatgtcatgatttgccaaattctaagacgatatcttgtcttatat-tcttgtagGACCACATTTCAACCCTAACAACATGACACACGGAGCTCCAGAAGATGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG

upper sequence: GRMZM2G106928_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv06s0061g00750.t01 (Vitis vinifera), 3'ss of exon 3
------------tgcatcttcagttatgctcgcccttctataataaattgaatcatctagctgttcaagttgccaagtctaactttaaaaaataaccttttctatctt-----acagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG
            || |  |  |||| ||   |    |   |  | | ||   |  |  |  || | ||  |   ||  |||| ||| || |     |||||| || ||     | |||| ||||||| ||||||||     |||| || ||||| || ||||| || ||||||||||||||||||||||||||||| ||||| |||||||| |
gttggatttgattgtagttcaagtt-tgactgttaattgttggttattttcctagtgaaattgatgaaaat-taaaaactaattttgaatatctttcttttcaattttgaataatagGAGCACATTTCAATCCAAATGGGATGACACATGGTGCTCCTGAAGATGATGTCCGTCATGCGGGTGACCTGGGAAACATAGTTGCCAATGCTGAAG

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|76909357|gb|DV163347.1|DV163347
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|32858163|gb|CD997844.1|CD997844
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|149048831|gb|EE048331.2|EE048331
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACACACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211358170|gb|FL056486.1|FL056486
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|110201685|gb|EC883582.1|EC883582
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|111192574|gb|EE290710.1|EE290710
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211360837|gb|FL056506.1|FL056506
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211358174|gb|FL056490.1|FL056490
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GGACCACATTTTAAT
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagG-ACCACATTTTAAT
EST: gi|71430440|gb|DR811490.1|DR811490
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|5871789|gb|AW018260.1|AW018260
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|14701400|gb|BI233818.1|BI233818
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|110505087|gb|EE017532.1|EE017532
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATTTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|60341036|gb|DN208009.1|DN208009
EST:     AATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAAT-TAGACGCACGGTGCACCAGAAGACGAA
genomic: AATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCT-GACGCACGGTGCACCAGAAGACGAA
EST: gi|149100116|gb|EE186171.2|EE186171
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATTTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|149105223|gb|EE290711.2|EE290711
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|15208763|gb|BI430647.1|BI430647
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211358167|gb|FL056483.1|FL056483
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|15082641|gb|BI389325.1|BI389325
EST:     ACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCCAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: ACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|89247199|gb|DY618985.1|DY618985
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|60355203|gb|DN222176.1|DN222176
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|15199132|gb|BI423675.1|BI423675
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|93014758|gb|EB640278.1|EB640278
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211051930|gb|FL422540.1|FL422540
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACTACATTTTAATCCAAACAATCTGACGCACGGTGCACCAKAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|71763838|gb|DR961775.1|DR961775
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|76016343|gb|DT943513.1|DT943513
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|60336753|gb|DN203726.1|DN203726
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|78022822|gb|DV491209.1|DV491209
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|60352737|gb|DN219710.1|DN219710
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|91050822|gb|EB161240.1|EB161240
EST:     CCCGAGTTTGGTGATTTTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATTTGACGCACGGGGCACCAGAAGAGGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211360826|gb|FL056495.1|FL056495
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGG
EST: gi|148944556|gb|EC889680.2|EC889680
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATTTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211322575|gb|FL457017.1|FL457017
EST:     GTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: GTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|76909356|gb|DV163346.1|DV163346
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|31355089|gb|CD439446.1|CD439446
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|5871782|gb|AW018253.1|AW018253
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211275807|gb|FL433165.1|FL433165
EST:     TCCACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: TCCACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211363487|gb|FL056511.1|FL056511
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|31357015|gb|CD441372.1|CD441372
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|71763886|gb|DR961823.1|DR961823
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|71318465|gb|DR795998.1|DR795998
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|14701399|gb|BI233817.1|BI233817
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211457760|gb|FL454143.1|FL454143
EST:     CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
EST: gi|211490441|gb|FL382377.1|FL382377
EST:     GTGATACTACCAAT-GGTGCATATCGACAG                         GACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG
genomic: GTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAG

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: 47 (upstream exon), 35 (downstream exon)
Score: 213

CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG


Block sizes: 49 (upstream exon), 35 (downstream exon)
Score: 376

CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG


Block sizes: 49 (upstream exon), 32 (downstream exon)
Score: 161

CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG


Block sizes: 49 (upstream exon), 32 (downstream exon)
Score: 256

CACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAGgttataattt ... tatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctgttcaagttgccaagtctaactttaaaaaataaccttttctatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG
                                aaataac  putative branch site (score: 256)
                                      ccttttctatcttac  CT-rich tract
                      taactttaaaaaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcatcttcagttatgctcgcccttctataataaattgaatcatctagctgttcaagttgccaagtctaactttaaaaaataaccttttctatcttacagGACCACATTTTAATCCAAACAATCTGACGCACGGTGCACCAGAAGACGAAGTCCGTCATGCGGGTGACCTGGGAAACATTGTTGCAAATGCTGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG