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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactgctttgttatgtttaatggattttccttatctgatgtttgatacttcccaaagttcaaaggtatgaaaatgatgtttcccttccttgtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTGACCAAGCTGACGTATGCCCAAGTAGCAGTTTATGGTTTTAGCGACAAAG

Basic information

species Glycine max
transcript GLYMA12G06530.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G06530.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S346_22V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------------------------------------------------------------------------tactgctttgttatgtttaatggattttcc-ttatctgatgtttgata-cttcccaaagttcaaag-----gtatgaa--aatgatgtttcccttcct-------tgtcact----gcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTGACCAAGCTGACGTATGCCCAAGTAGCAGTTTATGGTTTTAGCGACAAAG
|||| || | ||| | || | | || || | || ||| | | | | || || | | |||| || || || || || || ||||| || |||| | ||| |||||||| ||||| ||||||||||| ||||| || || |||| ||||| ||||| ||||| ||||| ||||| || ||||
gtatagcacgtgtttttttgtctttgtcttgggtacgccctcttgaaaagatgcttaacaagatgcagaattgtttagactgtcagtatacttgcaatatacttgcaatcatgagaaaatggaagtcttgctgatcgttagagaagcagttttagttaatgttgatttttttactgttggttcgttgctttacacagGTACTGTTAGGTAAAATATCAACAGGTGCACAGAATGACTTGGAGAAAGTTACGAAAATGACTTATGCACAAGTTGCAGTATATGGGTTTAGTGAAAAAG
















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|151408986|gb|EV278794.1|EV278794
EST:     AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|207735023|gb|GD711994.1|GD711994
EST:     CGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTA
genomic: CGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGT-
EST: gi|5606459|gb|AI900493.1|AI900493
EST:     AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|7685136|gb|AW755784.1|AW755784
EST:     AGCTTTGTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAC                         GTTCTTATAGGGAGAGAT-TCAACAGGAGCACAAAATGACTTGGGAAAA
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGA-ATCTCAACAGGAGCACAAAATGACTTGGAAAAA
EST: gi|58015788|gb|CX702530.1|CX702530
EST:     AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|193675738|gb|FK614866.1|FK614866
EST:     CTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
genomic: CTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|23729875|gb|BU763043.1|BU763043
EST:     AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAATTG
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|208292860|gb|GE094640.1|GE094640
EST:     CGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCGACAAAATGACTTGGAAAAAGT
genomic: CGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGC-ACAAAATGACTTGGAAAAAGT
EST: gi|22525362|gb|BU084173.1|BU084173
EST:     AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|10256628|gb|BE824394.1|BE824394
EST:     AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAG                         GTTCNNATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|12688251|gb|BG154587.1|BG154587
EST:     AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
genomic: AGCTTTTTGATATGACTTGTATGACACTTGGCGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG
EST: gi|193390477|gb|FK356425.1|FK356425
EST:     CGGTCGGGCTGCTGAGCAG                         GTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGG-AAAAGTG
genomic: CGGTCGGGCTGCTGAGCAGgtagttttga ... gtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttcccaaagttcaaaggtatgaaaatgatgtttcccttccttgtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTGACCAAGCTGACGTATGCCCAAGTAGCAGTTTATGGTTTTAGCGACAAAG
                                 tttcccttccttgtca  CT-rich tract
 tatgaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactgctttgttatgtttaatggattttccttatctgatgtttgatacttcccaaagttcaaaggtatgaaaatgatgtttcccttccttgtcactgcagGTTCTTATAGGGAGAATCTCAACAGGAGCACAAAATGACTTGGAAAAAGTGACCAAGCTGACGTATGCCCAAGTAGCAGTTTATGGTTTTAGCGACAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
tactgct
- - - - tgttatg
- - - - - - - - - - - - - - - - -tctgatg
- - - - - - - - - - - - - - - - - - - - - - - -cttccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtatga