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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttcagctagtcctatctagttcaacttctaattttgttaagcttgtaaagaacatctaatatggttttgtgacttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTATTCTGTGTTTAAAGCTGCTCGAATGTACAGAATGGAATGTGAGAAGGTT

Basic information

species Glycine max
transcript GLYMA08G19360.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19360.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S13_150V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------------------------------------------------------------------------gttagtttcagctagtcctatctagttc-aacttctaattttgttaagcttgtaaagaacatctaatatggttttgtg-acttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTATTCTGTGTTTAAAGCTGCTCGAATGTACAGAATGGAATGTGAGAAGGTT
                                                                                            | |  ||    | | |   || |||  ||    |  |  || | |   ||| |  |  || |||| |||             ||||||||||||||||| || ||||||||| | || || ||| |||| || ||||||||||| || || |||||||| |||||  | |||||    | |||||||
gtgagctactgttcacattccagattcgaatattttagttttgaaatttgtcgcgctatttttgaactacaatatgttgactaccgcacctgtggcgtccctgactgcctcctggttttaaggagtgctgctggtcatactgtgagaagaatttaatctggaaccacacgggcttgcagGAGAGAGGTCTTACCTGATGGGATTCTATACGCGTCAAGGGACTCGCATTATTCTGTATTCAAGGCTGCTCGCATGTATCGCATGGAGGCAGTGAAGGTT
















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|20449110|gb|BQ253234.1|BQ253234
EST:     TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGG                         GAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
genomic: TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGGgttagtttca ... acttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
EST: gi|13252285|gb|BG363188.1|BG363188
EST:     TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGG                         GAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
genomic: TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGGgttagtttca ... acttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
EST: gi|24136481|gb|BU926991.1|BU926991
EST:     TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGG                         GAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
genomic: TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGGgttagtttca ... acttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
EST: gi|18040607|gb|BM308901.1|BM308901
EST:     TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGG                         GAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
genomic: TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGGgttagtttca ... acttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
EST: gi|5126581|gb|AI748317.1|AI748317
EST:     TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGG                         GAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
genomic: TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGGgttagtttca ... acttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
EST: gi|23731905|gb|BU764099.1|BU764099
EST:     TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGG                         GAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA
genomic: TATATAACAAACTGTGGTACAGAAGGCAATCTCCATGGCATCCTAGTTGGgttagtttca ... acttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaattttgttaagcttgtaaagaacatctaatatggttttgtgacttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTATTCTGTGTTTAAAGCTGCTCGAATGTACAGAATGGAATGTGAGAAGGTT
     ttttgttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtttcagctagtcctatctagttcaacttctaattttgttaagcttgtaaagaacatctaatatggttttgtgacttgtgcagGAGAGAGGTCTTTCCAGATGGGATTTTGTATGCTTCACGGGAGTCACATTATTCTGTGTTTAAAGCTGCTCGAATGTACAGAATGGAATGTGAGAAGGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT