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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGATGTCTACGGTTCAAAGTGAGCTTGACTTGTCATATGGACAACGGTATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcctttttcgtagttcatagttatgggctgtcaatgttagcaagggttaatacagatgtatatgaattgtttacaaatgacttgtattcatgat...

Basic information

species Glycine max
transcript GLYMA16G06850.3
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G06850.3 (Glycine max), 5'ss of exon 14
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 5'ss of exon 14
TGGAGATGTCTACGGTTCAAAGTGAGCTTGACTTGTCATATGGACAACGGTATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatg--------ttcctttttcgtagttcatagttatgggctgtcaatgttagcaagggttaatacagatgtatatgaattgtttacaa-atgacttgtattcatgat-------
| || |||  ||| || |||||||| || |||||||| ||||| |||||||||||||| ||  | || |||||||| || || ||| |||||||||||||||| |        || ||   |  ||    |     || |||| |  || |    ||  | |        |   |     || | | ||| ||   || | | |||          
TAGATATGAATACTGTGCAAAGTGAACTAGACTTGTCGTATGGGCAACGGTATCAAGGTGTCGCTATCCCTGAGGCATACGAGCGCTTAATTCTTGACACgtaagaaataaattttctaaattatatactaccccaataggctttatatatc--taattgatgccttctgttccttcatgttatcttcaacatattttctttccatctctctgcag

upper sequence: GLYMA16G06850.3 (Glycine max), 5'ss of exon 14
lower sequence: AT3G27300.2 (Arabidopsis thaliana), 5'ss of exon 15
TGGAGATGTCTACGGTTCAAAGTGAGCTTGACTTGTCATATGGACAACGGTATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcctttt--tcgtagttc-atagttatgggctgtcaatgttagcaagggttaatacagatgtatatgaattgtttacaaatgacttgtattcatgat
||||||||   || || || ||||| || ||| | || ||    || || || ||||  ||  | ||||| |||||||| |||||||| |||||||||||||| |   ||  |     ||||||  ||  |     |  ||| |  |  ||   ||| |  |  || | | | |  | | | ||                   
TGGAGATGCAAACCGTGCAGAGTGAACTAGACCTATCGTACAAGCAGCGTTACCAAGATGTCTCAATTCCAGAGGCTTACGAACGCCTTATTCTTGACACgtaagaatctagtaacaatagttctgtatatcaaaaccttcattcatctcattagttgacccttat-tgtgt-atctctctgcag------------------

upper sequence: GLYMA16G06850.3 (Glycine max), 5'ss of exon 14
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 14
TGGAGATGTCTACGGTTCAAAGTGAGCTTGACTTGTCATATGGACAACGGTATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcctttttcgtagttcatagttatgggctgtcaatgttagcaagggttaatacagatgtatatgaattgtttacaaatgacttgtattcatgat---
| || ||||| || || ||||| || || |||||||||||||||||||| ||||||||  | || ||||| |||||||||||||| ||||||||||| |||||||  |   | ||    |||  | ||  |         ||  |   |   ||||  || ||||      |   |||  ||   |    | |   ||     
TTGAAATGTCAACTGTACAAAGCGAACTAGACTTGTCATATGGACAACGTTATCAAGGGTTTACAATTCCAGAGGCTTATGAACGTCTAATTCTTGATACgtatgacctcatatcc--attctcaattcagaatatgttttggcattcattattaaaccatatgtgctgctaccattt-taagccatcaatttatgtgggcat

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|214007883|gb|DB987813.1|DB987813
EST:     CAAGGAGTAACGATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGCTCGCAGAGATGAGTTGAAG
genomic: CAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|208263491|gb|GE061119.1|GE061119
EST:     GGCTTATGAACGCCTAATTTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: GGCTTATGAACGCCTAA-TTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|6566164|gb|AW233801.1|AW233801
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|15661766|gb|BI699137.1|BI699137
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|37994251|gb|CF805997.1|CF805997
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|14991365|gb|BI317038.1|BI317038
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCTTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGGGATGAGTGGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|213594893|gb|DB977221.1|DB977221
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTCATCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|7925329|gb|AW831416.1|AW831416
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAT
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|19053614|gb|BM732281.1|BM732281
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|38191492|gb|CF920698.1|CF920698
EST:     TATCAAGGAGTAACCATTCCTGAGGGTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|16343150|gb|BI968745.1|BI968745
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|58023690|gb|CX710431.1|CX710431
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|16346631|gb|BI972226.1|BI972226
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|192310376|gb|FK002256.1|FK002256
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|33390426|gb|CA853621.1|CA853621
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|16346044|gb|BI971639.1|BI971639
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|192330835|gb|FK021608.1|FK021608
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|37994259|gb|CF806005.1|CF806005
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|15661712|gb|BI699083.1|BI699083
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         NATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAGGCA
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAGGCA
EST: gi|58020056|gb|CX706798.1|CX706798
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|37995677|gb|CF807266.1|CF807266
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|7588280|gb|AW704079.1|AW704079
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|7693442|gb|AW761534.1|AW761534
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAGCAACATTTTGTTCGCAGAGATGAGTTGAAG
EST: gi|37994622|gb|CF806296.1|CF806296
EST:     TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACAC                         AATTAGAGGTGATCAGNCA-CATTTTGTTCGCAGAGATGAGTTGAA
genomic: TATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcct ... tgttttgcagAATTAGAGGTGATCAG-CAACATTTTGTTCGCAGAGATGAGTTGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAGATGTCTACGGTTCAAAGTGAGCTTGACTTGTCATATGGACAACGGTATCAAGGAGTAACCATTCCTGAGGCTTATGAACGCCTAATTCTTGACACgtatgttcctttttcgtagttcatagttatgggctgtcaatgttagcaagggttaatacagatgtatatgaattgtttacaaatgacttgtattcatgat

- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG