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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcaatcgttgcagagttattttttattatattgttactatgtcaagttctaaacactaatctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA

Basic information

species Glycine max
transcript GLYMA03G33000.4
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G33000.6 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g02310.1 (Oryza sativa), 3'ss of exon 4
------------gttgcaatcgttgcagagttatttttt-----attatattgtt------actatgtcaagttctaaacactaatc-----------tatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
            | | |||| | | ||   || |||||      |  ||||| ||      ||| |   | ||| |  |||  | |             ||| | || | |||||||| || || |||||||||||||| |||||||| ||||| || || || || ||  | ||||| |||||||||||  |||||||  || |||
gtaaaacaaggcgattcaattgattcatcattttttttagtgaaaccatatttttccagtgactctaaaatgttttgtacatcatttggttgtatgcacatgtaaagGTGGACCGTGTGCTCTATTCATCAGTTGTGTACCCTCACAACTATGGATTCATTCCTCGCACGCTGTGTGAAGACAGTGATCCGTTGGATGTGCTGGTTA

upper sequence: GLYMA03G33000.6 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G137930_T02 (Zea mays), 3'ss of exon 5
------------------------gttgcaatc--gttgcagagttattttttattatattgttactatgtcaagttctaaacactaatct------atgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
                        | || | ||   |||   || ||| |||  |   | |  || ||| |     | |       |||||      |||  ||| | |||||||| || || ||||||||||| || |||||||| ||||| || || || || ||  ||||||| |||||||||||  |||||||  || |||
gtaaagcaatgttgttttcctcccgctgaagtcttattgtgaagctatatttcttgccagttctaatatttactcctttccgtttcaatctgtgtgcatgtgcagGTGGACCGTGTGCTGTATTCATCAGTTGTTTACCCTCACAACTATGGATTCATTCCTCGCACGCTTTGTGAAGACAGTGATCCTTTGGATGTACTGGTTA

upper sequence: GLYMA03G33000.6 (Glycine max), 3'ss of exon 6
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------gttgcaatcgttgcagagttattttttattatattgttactatgtcaagt-tctaaacacta-atctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
            ||||| |   |      |   | |   ||  ||| |||      | | | |||||||  || |  |||   ||| |||||||| ||||||||||||| || || || || ||||| |||||||| || || |||||  |||||||||||||||| ||  | |||||  |  | |
gtataaatttgattgcattaactttct--tcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA

upper sequence: GLYMA03G33000.6 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 3'ss of exon 4
gttgcaatcgttgcagagttattttttattatattgttactatgtcaa------gtt-ctaaacacta-atctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
||    |    | |  |   ||||||     || | ||   |  ||||      ||| |||||   || ||  |||  ||| | |||||||| || ||||| ||||||||||| || ||||| ||||| ||||||||||||||| | |||||||||| ||| ||| ||||||||||| |||
gtaattaggtgttctaatccatttttctaggtactctttgcagatcaacaattggttgctaaattttatattcatgtgcagGTTGACCGTGTGCTGTACTCTTCAGTTGTGTACCCCCACAACTATGGCTTTATCCCACGTACTCTCTGTGAGGACAATGACCCCATGGATGTCTTGGTTA

upper sequence: GLYMA03G33000.6 (Glycine max), 3'ss of exon 6
lower sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------gttgcaatcgttgcagagttattttttattatattgttactatgtcaagttctaaacactaatcta--tgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
                              | |    || |   |   | |     | ||   |||   | |   |   | || ||   ||| ||   |   ||| | || ||| |  | |||||||||||||| ||||| |||||||||||||| || ||||||||| ||||||||||    |||||| | |||||  |  | |
gtacgtcattgccagtgactaactctaaacgatcttgtcttcatatcttcacgagctgttggcttggctcaaccaccgctccttaatcttaacctcatttttcagGTTGATCGTATCTTGTACTCATCAGTTGTCTATCCACACAATTATGGGTTCATTCCACGTACTCTTTGTGAGGATGAGGATCCCATTGATGTTCTCGTCA

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|192298048|gb|FG991328.1|FG991328
EST:     AGGGAGCAAGGTGAAATATGAACTGGACNNNNNNNTCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AGGGAGCAAGGTGAAATATGAACTGGACAAAAAA-TCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|207831666|gb|GD801720.1|GD801720
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|193320747|gb|FK283132.1|FK283132
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAAATTATGGGTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAA-TTATGGGTT
EST: gi|27446381|gb|CA953504.1|CA953504
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|10236851|gb|BE805739.1|BE805739
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|208275603|gb|GE078223.1|GE078223
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|5510301|gb|AI856743.1|AI856743
EST:     AGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCCGGTCTTATTCA-G                         ATCGACCGGGGTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTT
genomic: AGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTAT-CAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTT
EST: gi|7925031|gb|AW831057.1|AW831057
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|298199436|gb|HO042799.1|HO042799
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGGCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|192296495|gb|FG989111.1|FG989111
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|16105384|gb|BI893124.1|BI893124
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|8827754|gb|BE211484.1|BE211484
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|7588509|gb|AW704365.1|AW704365
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGGCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|9986811|gb|BE660919.1|BE660919
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|192324459|gb|FK015810.1|FK015810
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|7588510|gb|AW704234.1|AW704234
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGGCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|151404690|gb|EV274504.1|EV274504
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|207702226|gb|GD682981.1|GD682981
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|17022987|gb|BM094021.1|BM094021
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattttttattatattgttactatgtcaagttctaaacactaatctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
                                      cactaat  putative branch site (score: 2)
     ttttattatattgtta  TA-rich tract