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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAGGGAATCTACAATAGGTTGACGTGGTGGGAGCAGATAGACAATGGAAAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcctcctacaacattggtcatttcacttgtataaatatgaatatcatacaaccattttgacattcattagttatatttttgcattaacctttt...

Basic information

species Vitis vinifera
transcript Vv15s0046g00140.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g00140.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os04g47970.1 (Oryza sativa), 5'ss of exon 2
ACCAGGGAATCTACAATAGGTTGACGTGGTGGGAGCAGATAGACAATGGAAAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcctcctacaac-attggtcatttcacttgtataaatatgaatatcatacaaccattttgacattcattagttatatttttgcattaacctttt--
||||||| || || ||||| ||||| ||||||||||| || |||||||| |||||||| || ||||| || ||||| || || || || ||  |||| |||||||  |    ||    | |||| |  |     |      |  ||  | |  ||  |      ||||   |   |||  |    |  | | ||||   |   
ACCAGGGGATGTATAATAGATTGACTTGGTGGGAGCAAATGGACAATGGGAAGCAGCTTACTCGCAACAGAAAATTTCTGACCGTGGTTCCTTTGGTCCTgtaagaataaatctgttgcgattgattttccttttcactacagcattgaaaatatggatgatgattgattctacatagccag---taagtagtaactagtaaa

upper sequence: Vv15s0046g00140.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os02g45180.1 (Oryza sativa), 5'ss of exon 2
ACCAGGGAATCTACAATAGGTTGACGTGGTGGGAGCAGATAGACAATGGAAAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcctcctacaacat-tggtcatttcacttgtataaatatgaatatcatacaaccattttgacattcattagttatatttttgcattaacctttt--
|||||||||| ||||| |  ||||| ||||||||||| || |||||||| || ||||| || ||||| ||||| |||||   ||| || || || || |||||||| | || |||  || | |   |||     |    || | |    |||    |   || || |  ||| |  ||  |||     |||  |     |   
ACCAGGGAATGTACAACACATTGACTTGGTGGGAGCAAATGGACAATGGCAAACAGCTTACTCGCAACAGGAAGTTCCTTGTTGTAGTTCCTGTTGTCCTgtaagtattcttctattacttcttagcatccatttcaattatacaaacttattg-gcgggcacttagg-atttaggagcaataacag-gcaacatgtactcaa

upper sequence: Vv15s0046g00140.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G064898_T02 (Zea mays), 5'ss of exon 2
ACCAGGGAATCTACAATAGGTTGACGTGGTGGGAGCAGATAGACAATGGAAAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcctcctacaacattggtcatttcacttgtataaatatgaatatcatacaaccattttgacattcattagttat--atttttgcattaacctttt
|||| || |||||||  || ||||| ||||||||||| || ||||||||  ||||||| || || || ||||| ||  ||||||| ||||| ||||||||||||||  | ||  |     |||  || |||||   |  | | || | | |       |      |  | | | || | ||   |    ||| |     |||
ACCAAGGCATCTACAGCAGATTGACATGGTGGGAGCAAATTGACAATGGTCAGCAGCTTACTCGGAACAGGAAGTTTTTAACTGTGGTACCTGTGGTGCTgtaagttccatctcatcctcttg--cagttcacacatgaacaaattactctttagattctggaaaggaaattaatactaatcagtacaggcagtggttgttt

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|33408811|gb|CF214438.1|CF214438
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110717773|gb|EE093925.1|EE093925
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|22013006|gb|BQ798040.1|BQ798040
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110379719|gb|EC944937.1|EC944937
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110408974|gb|EC974627.1|EC974627
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110705855|gb|EE083181.1|EE083181
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110396783|gb|EC962483.1|EC962483
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|351053778|gb|FQ441544.1|FQ441544
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110380098|gb|EC945340.1|EC945340
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110702334|gb|EE080930.1|EE080930
EST:     AAGCAACTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110385627|gb|EC950171.1|EC950171
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110373660|gb|EC937916.1|EC937916
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110706167|gb|EE083842.1|EE083842
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|30321089|gb|CD004351.1|CD004351
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110398590|gb|EC965059.1|EC965059
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|18458776|gb|BM437054.1|BM437054
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110728899|gb|EE104881.1|EE104881
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110388187|gb|EC952911.1|EC952911
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|22013007|gb|BQ798041.1|BQ798041
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110371796|gb|EC935920.1|EC935920
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110427569|gb|EC994016.1|EC994016
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|30320507|gb|CD003769.1|CD003769
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|110715253|gb|EE093094.1|EE093094
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCGTCACACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|87584976|gb|DY473925.1|DY473925
EST:     AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
EST: gi|51989847|gb|CV179302.1|CV179302
EST:     AAGCAGCTCTCACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCT                         GTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT
genomic: AAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcc ... atcttaacagGTACTTGATAGCATCGCACACCACTGACTACCAGCACCCCATGCTCTTCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCAGGGAATCTACAATAGGTTGACGTGGTGGGAGCAGATAGACAATGGAAAGCAGCTCACACGCAATAGGAAATTCCTAACTGTTGTACCAGTGGTGCTgtaagtgtcctcctacaacattggtcatttcacttgtataaatatgaatatcatacaaccattttgacattcattagttatatttttgcattaacctttt

- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcctcct