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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtctcactttctagctgctaagcaaaactaaaactagtttctactaaataatatattgatatggcctgtttttcctgtccatcatgttattttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGATTATCCAGACAATCCTCCATCTGTTAGATTTCAAACAAGGATTAACATGA

Basic information

species Glycine max
transcript GLYMA07G24950.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G24950.4 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g05630.t01 (Vitis vinifera), 3'ss of exon 2
gtgtctcactttctagctgctaagcaaaactaaaacta-gtttctactaaataatatattgatatggcctgtttttcctgtccatcatgttattttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGATTATCCAGACAATCCTCCATCTGTTAGATTTCAAACAAGGATTAACATGA
   |    ||||    |  || |         |||||    |   ||    ||| | | ||  | |   |   || | |  | || |       || |||||| |||||||||||||| ||||||||||||||| |||| ||  |   ||| ||||| || ||||| ||| |||| |  || || ||  |||| || ||||
-actactgcttttagacaacttatttccttctaaactctactgtcaccctttaaaagagtggaaagtgattccttacttagcaattactgctgcttgccagACCGTTCATGAAGGGCGCATCTACCAGTTGAAACTGTTCTGTGGTCAGGACTATCCGGATAATCCACCAACTGTGAAGTTCCAGACTCGGATAAATATGA
















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|298170625|gb|HO019249.1|HO019249
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|298164494|gb|HO014139.1|HO014139
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCGTCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|31473085|gb|CD415113.1|CD415113
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|298194253|gb|HO040901.1|HO040901
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|15814266|gb|BI786541.1|BI786541
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|208123865|gb|GD922443.1|GD922443
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTT
EST: gi|298199013|gb|HO042376.1|HO042376
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|31460508|gb|CD402476.1|CD402476
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|20811384|gb|BQ295862.1|BQ295862
EST:     GGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: GGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|209720927|gb|BW682406.1|BW682406
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192306562|gb|FG997232.1|FG997232
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|17963848|gb|BM270592.1|BM270592
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192297154|gb|FG988250.1|FG988250
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|208158799|gb|GD954688.1|GD954688
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTT
EST: gi|298172716|gb|HO019756.1|HO019756
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|298185548|gb|HO030761.1|HO030761
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192306561|gb|FG997231.1|FG997231
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|31457983|gb|CD400011.1|CD400011
EST:     ATGACATATACATNCCATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192312733|gb|FK005387.1|FK005387
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|298182508|gb|HO031243.1|HO031243
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192296212|gb|FG989048.1|FG989048
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCGTCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|151409397|gb|EV279205.1|EV279205
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|15661899|gb|BI699270.1|BI699270
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|298175103|gb|HO014906.1|HO014906
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|208267617|gb|GE063740.1|GE063740
EST:     TGACATATACATGCAATCTTGGACTGGGACTATCATCCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: TGACATATACATGCAATCTTGGACTGGGACTATCAT-CGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|31311833|gb|CD397036.1|CD397036
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|21993992|gb|BQ785520.1|BQ785520
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192331361|gb|FK021029.1|FK021029
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192312732|gb|FK005386.1|FK005386
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192316474|gb|FK006765.1|FK006765
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|192316475|gb|FK006766.1|FK006766
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|21887768|gb|BQ740981.1|BQ740981
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|298196851|gb|HO041594.1|HO041594
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
EST: gi|7924626|gb|AW830652.1|AW830652
EST:     ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGT                         ACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT
genomic: ATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgct ... attttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaaataatatattgatatggcctgtttttcctgtccatcatgttattttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGATTATCCAGACAATCCTCCATCTGTTAGATTTCAAACAAGGATTAACATGA
                                           ttatttt  CT-rich tract
     taatatattgatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtctcactttctagctgctaagcaaaactaaaactagtttctactaaataatatattgatatggcctgtttttcctgtccatcatgttattttaccagACTGTTCATGAAGGGCGTATCTACCAGTTGAAATTGTTTTGCAGCAGGGATTATCCAGACAATCCTCCATCTGTTAGATTTCAAACAAGGATTAACATGA

- - - cactttc
- - - - - - -tagctgc
- - - - - - - - - - - - caaaact
- - - - - - - - - - - - - - - -aaaactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgtt