Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacactcccaaatgattattctgatgtatggaaaatgcaataagtggggaattcatggcagagtattcaaatagtgatgatattacattgggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAGATTTGTGGGAAAGAGTAAAGCTTCCTAGGAATTACGAGAAGGCACTTGA

Basic information

species Glycine max
transcript GLYMA12G14000.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G14000.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0030g01480.t01 (Vitis vinifera), 3'ss of exon 12
-aacactcccaaat-gattattctgatgtatggaaaatgcaataagtggggaattcatg--gcagagtattcaaatagtgatgatattacattgggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAGATTTGTGGGAAAGAGTAAAGCTTCCTAGGAATTACGAGAAGGCACTTGA
    | |     || | ||  |||    ||     | | |  ||  |      |  |||  || || |||   |||  |  || | |    ||   |  ||||||||||||||| || ||||||||||| ||||||||||| |||||||| ||  | || |||||| | || ||  | ||  | || ||||  ||||| |||||
tgtgatttatggattgtttcctctttattaaatttagttctttagatcaaagctgtatgtggctgactatgttaatgat--tggtctctggttc--ttgtgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA

upper sequence: GLYMA12G14000.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 3
-aacactcccaaat-gattattctgatgtatggaaaatgcaataagtggggaattcatggcagagtattcaaatagtgatgatattacattgggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAGATTTGTGGGAAAGAGTAAAGCTTCCTAGGAATTACGAGAAGGCACTTGA
    | |     || | ||  |||    ||     | | |  ||  |      |  |||   |   | |    |||||||     |    |   || ||||||||||||||| || ||||||||||| ||||||||||| |||||||| ||  | || |||||| | || ||  | ||  | || ||||  ||||| |||||
tgtgatttatggattgtttcctctttattaaaattacttctttagatcaaagctgtatg-tggctgactatgttagtgattggtctctggttcttg-tgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
















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|193481770|gb|FK446889.1|FK446889
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193697396|gb|FK641114.1|FK641114
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|151406980|gb|EV276795.1|EV276795
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|207824445|gb|GD793441.1|GD793441
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193621397|gb|FK566839.1|FK566839
EST:     CCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|208216509|gb|GE012959.1|GE012959
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTTACCTTTACATGAAAACTAATTGAA-GAGCTCATATGCCG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTT-ACCTTTACATGAAAACTA-TTGAAAGAGCTCATATGCCG
EST: gi|193510355|gb|FK470283.1|FK470283
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|207688209|gb|GD672576.1|GD672576
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|208340511|gb|GE136213.1|GE136213
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCACTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193473231|gb|FK436302.1|FK436302
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|207747095|gb|GD720752.1|GD720752
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193437567|gb|FK399570.1|FK399570
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193396002|gb|FK361421.1|FK361421
EST:     CGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATTGCCGAAA
genomic: CGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATA-TGCCGAAA
EST: gi|18041381|gb|BM309675.1|BM309675
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|207790009|gb|GD761300.1|GD761300
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|207712629|gb|GD694387.1|GD694387
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACTACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|208263533|gb|GE061133.1|GE061133
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193567244|gb|FK524701.1|FK524701
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|17518730|gb|BM187772.1|BM187772
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|208193955|gb|GD994238.1|GD994238
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|208292464|gb|GE091570.1|GE091570
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|207729934|gb|GD706486.1|GD706486
EST:     CCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193666282|gb|FK610591.1|FK610591
EST:     CGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|298164306|gb|HO013951.1|HO013951
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|208192116|gb|GD992400.1|GD992400
EST:     CCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|207685783|gb|GD669115.1|GD669115
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193492027|gb|FK453443.1|FK453443
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193670864|gb|FK613700.1|FK613700
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193497351|gb|FK458259.1|FK458259
EST:     CGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193606954|gb|FK560003.1|FK560003
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|208156179|gb|GD952821.1|GD952821
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193688847|gb|FK627838.1|FK627838
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193310285|gb|FK273691.1|FK273691
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193353439|gb|FK323645.1|FK323645
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
EST: gi|193355796|gb|FK323447.1|FK323447
EST:     TCGTGACCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAA
genomic: TCGTG-CCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTG-TTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAA
EST: gi|193719717|gb|FK652271.1|FK652271
EST:     CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATG                         GAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG
genomic: CTCGTGCCCTTTGGCTAATAGTCGCTATGCCACCATTCGCGACGACAATGgtacttttgc ... ggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggaattcatggcagagtattcaaatagtgatgatattacattgggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAGATTTGTGGGAAAGAGTAAAGCTTCCTAGGAATTACGAGAAGGCACTTGA
                  tattcaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacactcccaaatgattattctgatgtatggaaaatgcaataagtggggaattcatggcagagtattcaaatagtgatgatattacattgggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAGATTTGTGGGAAAGAGTAAAGCTTCCTAGGAATTACGAGAAGGCACTTGA

- cactccc
- - - - - - - - - -tctgatg
- - - - - - - - - - - - - - - - -aatgcaa
- - - - - - - - - - - - - - - - - - - - - -gtgggga
- - - - - - - - - - - - - - - - - - - - - - - - - - -catggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgat