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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acacttttactcaacatttatggactcttcatggacatccaattaaattggccatgatttgagatgaattatagtctgagtaatgaatacttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGACACTCCAAAGGAAACGAGCAAGGATTGCCGACAAGAAGAAGAGAATTGC

Basic information

species Glycine max
transcript GLYMA07G31840.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g06290.t01 (Vitis vinifera), 3'ss of exon 5
acacttttactcaacatttatggactcttcatggacat--ccaattaaat---tggccatgatttgagatgaattat--agtctgagtaatgaatacttg-tttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGACACTCCAAAGGAAACGAGCAAGGATTGCCGACAAGAAGAAGAGAATTGC
        | |    ||  |  |  | | ||   | |       | ||||   |  |      ||    |  |||||  |  |   |   ||  |  ||  |||||||| |||||    || |||||||| ||||| ||  |  | || |||||||||||  | || ||||| ||||| |||||||| || |||||||||||||||||
--------attggttataaaatggttatccaaaaaaagaattggtaaaatggctaactgcatcttttattctattattaaagccttggggtgcttgtttaatttgcagGCAAAAAGTGCAGTAAAGCTCCCAAGATACAGAGGTTGGTTACTCCTTTGACCTTGCAGAGGAAGCGAGCCAGGATTGCAGAGAAGAAGAAGAGAATTGC

upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0017g01350.t01 (Vitis vinifera), 3'ss of exon 5
--acacttttactcaacatttatggactcttcatggacatccaa----ttaaattggccatgatttgagatgaattatagtctgagtaatgaatacttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGACACTCCAAAGGAAACGAGCAAGGATTGCCGACAAGAAGAAGAGAATTGC
    |  || |    |   |||       |   |    ||        |||||      | ||    ||||  || || || | |  | ||     |  |   ||||||| |||   || ||||| || ||||||||  | || || || || ||||| || || ||||| || ||||||||||| || |||||||||||||||||
actgaaattcatgtgatgcttaaaagtattatttcagtattttgctttttaaaagactaaagacagaagattgat-atggtttcatcactg-----tgatcctcagGGAAGAAATGCAGTAAAGCCCCTAAGATTCAGAGGCTGGTGACCCCATTGACTCTGCAGAGGAAGCGTGCAAGGATTGCAGAGAAGAAGAAGAGAATTGC
















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|207759940|gb|GD733123.1|GD733123
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|193479816|gb|FK445497.1|FK445497
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|254337601|gb|GR849447.1|GR849447
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|208299943|gb|GE098056.1|GE098056
EST:     GTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGG
genomic: GTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|7692658|gb|AW760759.1|AW760759
EST:     CGTGAGATAGTATGTTAACACATACCGTCGAACCTTTACAACATAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|10255773|gb|BE823483.1|BE823483
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|208307215|gb|GE108755.1|GE108755
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|58015016|gb|CX701758.1|CX701758
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|209710044|gb|BW681036.1|BW681036
EST:     ACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: ACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|6916434|gb|AW397964.1|AW397964
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTGTACAACAGAAGCTG                         GGAAAAAAGTGAGCAAAGCTGCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|213611404|gb|DB975063.1|DB975063
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|193361814|gb|FK326080.1|FK326080
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTACCTTTA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACT-CCTTT-
EST: gi|193409501|gb|FK371195.1|FK371195
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|208317023|gb|GE111478.1|GE111478
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTATAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGATTGGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|193531607|gb|FK491399.1|FK491399
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|193537513|gb|FK495892.1|FK495892
EST:     TGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTATAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGATTGGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|16344376|gb|BI969971.1|BI969971
EST:     TGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|207814704|gb|GD788613.1|GD788613
EST:     AACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: AACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|151395160|gb|EV265031.1|EV265031
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGNNNNNNNGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTG
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAA-GTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTG
EST: gi|193669551|gb|FK613621.1|FK613621
EST:     ATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: ATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|208133288|gb|GD926545.1|GD926545
EST:     GTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: GTGAGAAAGTATGTTAACACATACCGTCGAACCTTTAC-AACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|193538373|gb|FK496738.1|FK496738
EST:     ATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GG-AAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: ATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|15662387|gb|BI699758.1|BI699758
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|16997201|gb|BM086573.1|BM086573
EST:     TGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|57574317|gb|CX547292.1|CX547292
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|9565433|gb|BE474942.1|BE474942
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|207760073|gb|GD733172.1|GD733172
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|209720479|gb|BW671798.1|BW671798
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
EST: gi|8403866|gb|BE059500.1|BE059500
EST:     CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTG                         GGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA
genomic: CGTGAGAAAGTATGTTAACACATACCGTCGAACCTTTACAACAAAAGCTGgtaagtttcc ... ttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattggccatgatttgagatgaattatagtctgagtaatgaatacttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGACACTCCAAAGGAAACGAGCAAGGATTGCCGACAAGAAGAAGAGAATTGC
                                            cttgttt  CT-rich tract
                  atgaattata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acacttttactcaacatttatggactcttcatggacatccaattaaattggccatgatttgagatgaattatagtctgagtaatgaatacttgtttgcagGGAAAAAAGTGAGCAAAGCTCCAAAGATTCAACGACTAGTCACTCCTTTGACACTCCAAAGGAAACGAGCAAGGATTGCCGACAAGAAGAAGAGAATTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA