Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtttcaagaagtttgaccctacagtttaataaaaatctaaaagtgcaatttctttgttttctccttttggctaacatttgtttttttactcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAGCGAATGCTAAAAAAACTGAGAGCTAAGCTGTTGACTGGCATTCTAAAGG

Basic information

species Glycine max
transcript GLYMA10G04770.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G04770.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g04860.t01 (Vitis vinifera), 3'ss of exon 4
aaagtttcaagaagtttgaccct---acagtttaataaaaatctaaaagtgcaatttctttgttttctccttt-tggctaacatttgtttttttactcctg--cagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAGCGAATGCTAAAAAAACTGAGAGCTAAGCTGTTGACTGGCATTCTAAAGG-
       | ||||  |   | ||   | |   ||| ||   || | |||  ||      |||     |      |  |  |  | | | |  ||| | |||  |||||||  ||||||| ||||||||||||||||| |||||||||||||||||||| |   | | ||| || ||||||||  || |  |     ||| ||  || 
------cctagaaactcatcacttgtataaaataacaactgtcaataagaacatcaaaattggaaggtaaaaagtaaccgaactctttatgcttaatgctgtgcagATACTGTGAAGCTATACCGGAAAGGAGAACTTGAACCTTTGCTATCAGAAGCCAGCACCAGAAAGACAGAGAGCTAGCCTCTCTAGCAA-ATTATACTGGA
















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|58023880|gb|CX710621.1|CX710621
EST:     GGTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GGTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|192330811|gb|FK021598.1|FK021598
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|209696584|gb|BW660387.1|BW660387
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|192329347|gb|FK022151.1|FK022151
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAAC
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAAC
EST: gi|192330810|gb|FK021597.1|FK021597
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|23064336|gb|BU579109.1|BU579109
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|209696583|gb|BW660386.1|BW660386
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|17519765|gb|BM188807.1|BM188807
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|151395752|gb|EV265629.1|EV265629
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|27427202|gb|CA938722.1|CA938722
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|7692508|gb|AW760612.1|AW760612
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|19053157|gb|BM731824.1|BM731824
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|9902605|gb|BE611636.1|BE611636
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|23064425|gb|BU579198.1|BU579198
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|13477671|gb|BG507457.1|BG507457
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|31472346|gb|CD414374.1|CD414374
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|15286365|gb|BI470256.1|BI470256
EST:     GCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|26048294|gb|CA784810.1|CA784810
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|7235230|gb|AW570559.1|AW570559
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|192306917|gb|FG999950.1|FG999950
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|10844573|gb|BF067828.1|BF067828
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|23061247|gb|BU578451.1|BU578451
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|10231387|gb|BE800275.1|BE800275
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|31456460|gb|CD398488.1|CD398488
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|6482647|gb|AW201892.1|AW201892
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|298189180|gb|HO037583.1|HO037583
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|21887571|gb|BQ740784.1|BQ740784
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
EST: gi|19268978|gb|BM885234.1|BM885234
EST:     GTGGCAAACACATTGGCGGCTGTACAG                         ATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG
genomic: GTGGCAAACACATTGGCGGCTGTACAGgtatattatt ... actcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcaatttctttgttttctccttttggctaacatttgtttttttactcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAGCGAATGCTAAAAAAACTGAGAGCTAAGCTGTTGACTGGCATTCTAAAGG
                          ggctaac  putative branch site (score: 2)
                                  tttgtttttttactcc  CT-rich tract
                             taacatttgttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaagtttcaagaagtttgaccctacagtttaataaaaatctaaaagtgcaatttctttgttttctccttttggctaacatttgtttttttactcctgcagATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATCAGAAGCGAATGCTAAAAAAACTGAGAGCTAAGCTGTTGACTGGCATTCTAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT