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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtatttgaagtataattattcactgacttttgtactgatttatatgatattaactgtaacccatgcttttacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAG

Basic information

species Glycine max
transcript GLYMA09G08150.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G08150.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g00900.t01 (Vitis vinifera), 3'ss of exon 5
----------gtgcgta--tttgaagtataattattcactga----cttttgtactgatttatatgat-attaactgtaacccatg---cttttacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAG
          || |  |  |||| | ||  || ||| |   |    || |     | |||||| |  | |||     ||    |||   |||  | ||||||||| ||||| ||  | || ||||||||||| || | |||||||||||||||||| ||||| || |
gtgcagtactgtacccagttttggactaggataatttaaaaagccactgtcaacattatttatgttctcattgctcctagtttatgtgccttacataccacagGTGTGGAATCCCATGGGCATAGTTGGTGTGATTACTGCTTTCAACTTTCCATGTGCTGTCCTTG
















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|14258546|gb|BG881454.1|BG881454
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|208083788|gb|GD881736.1|GD881736
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|193367841|gb|FK333423.1|FK333423
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|208034630|gb|GD836794.1|GD836794
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|193521194|gb|FK480305.1|FK480305
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|254341577|gb|GR852714.1|GR852714
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|16347961|gb|BI973556.1|BI973556
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTATGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|12489527|gb|BG043049.1|BG043049
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTATGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|6668020|gb|AW279471.1|AW279471
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|193455585|gb|FK418764.1|FK418764
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA
EST: gi|27427065|gb|CA938585.1|CA938585
EST:     ACGTCCAGATCATATGATGTTTGAG                         GTATGGAACCCACTAGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCA
genomic: ACGTCCAGATCATATGATGTTTGAGgtgcgtattt ... tacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacttttgtactgatttatatgatattaactgtaacccatgcttttacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAG
                                       tgctttt  CT-rich tract
             atttatatgatattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtatttgaagtataattattcactgacttttgtactgatttatatgatattaactgtaacccatgcttttacaccacagGTATGGAACCCACTAGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT