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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCATGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatcaaaaagcgacgtcgtttgcgactctgtgaatttcagattgcacataacgtgtttgtaatttggtcgcag

Basic information

species Glycine max
transcript GLYMA06G15680.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15680.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G175875_T01 (Zea mays), 5'ss of exon 1
-----AACCATGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaa-------------tcaaaaagcgacgtcgtttgcgactctgtgaatttcagattgcacataacgtgtttgtaatttggtcgcag-------------------
      || ||||| |||||| |||||||||||||||||||||| ||||| |||||||||||||                ||    ||| | | ||| ||     | |     ||    || ||      ||| |||| | |  ||  |                     
GGTAGGACGATGGTGTCGCAGCTGGTGAAGCACGAGCGCATCGAGACTACCGTTGCCAAGGTACTTTCTTTCGCGGCGTTTCTTCGAGCAAGGGCGTGTGgtgggcgggcggatttgtgttccaggagtggtgattgtgaatgagtttcctttgctgtggtgcgtttcag

upper sequence: GLYMA06G15680.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G112865_T03 (Zea mays), 5'ss of exon 1
---------------------------------------------AACCATGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtac-----------caatcaaaaagcgacgtcgtttgcgactctgtgaatttcagattgcacataacgtgtttgtaatttggtcgcag------------------------------------------
                                              || ||||| |||||| |||||||||||||||||||||| || || ||||||||||||            |  ||  | | ||  ||  |        | | |   ||  | | |  |     |  ||||   |   |  |  |                                          
TGCGTCGCCTTGCCGTTGATCTCACTGGATTTGTCTCCCCGGCAGGACGATGGTGTCGCAGCTGGTGAAGCACGAGCGCATCGAGACCACCGTTGCCAAGgtattttttctctctctctcgtataccggtgttttccatcgaccagggggcttgtggtgg-gcgggcaggatttgggctccaggaggggggtaattgttaactgcgtttcctttgccgtgcttcgtttcag

upper sequence: GLYMA06G15680.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G112865_T02 (Zea mays), 5'ss of exon 2
AACCATGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgta-----------ccaatcaaaaagcgacgtcgtttgcgactctgtgaatttcagattgcacataacgtgtttgtaatttggtcgcag------------------------------------------
 || ||||| |||||| |||||||||||||||||||||| || || ||||||||||||            |  ||  | | ||  ||  |        | | |   ||  | | |  |     |  ||||   |   |  |  |                                          
GACGATGGTGTCGCAGCTGGTGAAGCACGAGCGCATCGAGACCACCGTTGCCAAGgtattttttctctctctctcgtataccggtgttttccatcgaccagggggcttgtggtgg-gcgggcaggatttgggctccaggaggggggtaattgttaactgcgtttcctttgccgtgcttcgtttcag

upper sequence: GLYMA06G15680.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0044g00980.t01 (Vitis vinifera), 5'ss of exon 2
AACCATGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatcaaaaagcgacgtcgtttgcgactctgtgaatttcagattgcacataacgtgtttgtaatttggtcgcag------------------------
||| ||||| |||||||||||||||||||||||||| ||||| || ||||||||||||  || |      |    ||  |      | | |  || |  | |||        |    |||     | | | ||                        
AACAATGGTGTCGCAGTTGGTGAAGCACGAGCGCATTGAAACCACCGTTGCCAAGgta--aaactgcttcctctttcaatgttttttgtttacatctttgtttgtttgccgtgaaaatgtcgagcgatggaagacgagcttgatgttgaatgcattt

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|298180743|gb|HO022182.1|HO022182
EST:     TGGCCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGGAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|298170767|gb|HO015743.1|HO015743
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAGGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|192322981|gb|FK016712.1|FK016712
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|192306136|gb|FG993698.1|FG993698
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTACAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|22927036|gb|BU544175.1|BU544175
EST:     CGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: CGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|151396812|gb|EV266685.1|EV266685
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|192306137|gb|FG993699.1|FG993699
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTACAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|192317271|gb|FK010502.1|FK010502
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|298174884|gb|HO014801.1|HO014801
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTTGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|151407106|gb|EV276921.1|EV276921
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|151395463|gb|EV265340.1|EV265340
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|192317270|gb|FK010501.1|FK010501
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|192299353|gb|FG990749.1|FG990749
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
EST: gi|7588869|gb|AW704655.1|AW704655
EST:     TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAG                         GCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG
genomic: TGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatca ... ttggtcgcagGCGAAAGAGATCAGAAGACTCGCGGATAATATGGTGCAGCTTGGAAAGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACCATGGTCTCGCAGTTGGTGAAGCACGAGCGCATCGAAACTACTGTTGCCAAGgtaccaatcaaaaagcgacgtcgtttgcgactctgtgaatttcagattgcacataacgtgtttgtaatttggtcgcag

- - - - - - - - - - TGAAGC