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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtagtcaatgctttgctcttttatcatagaaattaaaaaaaaaattgtaatcaatgttctataattgttcaaacaaatgatcgataaatcttctatatcgtgtaaatgtttctctagGAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACAATGACTACCTTCCATGATCTTATTCCTACAAAACTTGCTGCTGGTGTCT

Basic information

species Glycine max
transcript GLYMA17G14450.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G14450.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 8
gtatgtagtcaatgctttgctcttttatcatagaaattaaaaaaaaaattgtaatcaatgttctataattgttcaaacaaatgatcgataaat-cttctatatcgtgtaaatgttt---ctctagGAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACAATGACTACCTTCCATGATCTTATTCCTACAAAACTTGCTGCTGGTGTCT
                                                 |||| |  | | | | |||||||| |  || ||  |    | ||  ||||  | | |     ||||     |  ||||  |||||||||| ||||  ||||| ||||||| ||| ||| ||||||||   || || || | |||||| ||||||||||| ||||||||||  || |
----------------------------------------------gtatgtatttcaagatttctaattgttgattcacattgtattaagatatttctgaagcataagtgtgttcgaatttcagGAGCTTCCTTTTGTGCGCTACCGTGCCGCCAAGTTCCTTGATCCAACCACAGCAACAACATTTCGTGATCTAATTCCTACAAAGCTTGCTGCTGCAGTAT
















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|254321302|gb|GR824619.1|GR824619
EST:     GTTTAAATGTGATGGCTACTCGGATTGCAACACTTTTTGCTTCATTAAGA                         GAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACA
genomic: GTTTAAATGTGATGGCTACTCGGATTGCAACACTTTTTGCTTCATTAAGAgtatgtagtc ... gtttctctagGAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACA
EST: gi|208131886|gb|GD932591.1|GD932591
EST:     GTTTAAATGTGATGGCTACTCGGATTGCAACACTTTTTGCTTCATTAAGA                         GAATTTCCTTTTGTCCGCTTTCGTTGCTGCCAAGTCCCTA
genomic: GTTTAAATGTGATGGCTACTCGGATTGCAACACTTTTTGCTTCATTAAGAgtatgtagtc ... gtttctctagGAATTTCCTTTTGTCCGCTTTCGT-GCTGCCAAGTCCCTA
EST: gi|193327628|gb|FK297345.1|FK297345
EST:     GTTTAAATGTGATGGCTACTCGGATTGCAACACTTTTTGCTTCATTAAGA                         GAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACA
genomic: GTTTAAATGTGATGGCTACTCGGATTGCAACACTTTTTGCTTCATTAAGAgtatgtagtc ... gtttctctagGAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgttcaaacaaatgatcgataaatcttctatatcgtgtaaatgtttctctagGAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACAATGACTACCTTCCATGATCTTATTCCTACAAAACTTGCTGCTGGTGTCT
                                            tgtttctct  CT-rich tract
                     ataaatcttctatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtagtcaatgctttgctcttttatcatagaaattaaaaaaaaaattgtaatcaatgttctataattgttcaaacaaatgatcgataaatcttctatatcgtgtaaatgtttctctagGAATTTCCTTTTGTCCGCTTTCGTGCTGCCAAGTCCCTAGATGCAACCACAATGACTACCTTCCATGATCTTATTCCTACAAAACTTGCTGCTGGTGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT