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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaactaaccacctgttcaaattgaaaatgtgaaacgctgaatcttgagggtttgagttctatgcgacgtcgttttgtgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC

Basic information

species Glycine max
transcript GLYMA11G19550.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19550.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G08200.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------gtaactaactaaccacctgttcaaattgaaaatgtgaaacgctgaatcttgagggtttgagttcta----tgcgacgtcgtt--ttgtgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC
                                  ||    | ||  | |  || ||  |    |  |    |   |  |  || ||| |||| |     || |  ||| ||  || || | ||||||| |||||||| || |||||||||||||| || || || || |||||||| |||||||| || ||||| || |||  |||||| || || |||  |||||
gtatgtattttatgcttttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaat--atttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtagGTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGTGAAGTGTATGGAAAAACTATAGGAAGCTTTCTTCCAAAGGATCATCCTC

upper sequence: GLYMA11G19550.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G27860.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaactaactaaccacctgttcaaattgaaaatgtga---aacgctgaatcttgagggt--ttgagttctatgcgacgtcgttttgtgct----ttgt-agGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC
|||  |   |        | |    |      | ||    | | ||   | |||| | |  | |||        ||    ||  || | |    |||| |||||||||||||||| |||||||||||||| || || || || || || || ||||| || || ||||| ||||||  |||||| ||||| |||  |||||
gtatgtgttttcttcttagcttcgttcattgttttgctttagctcttgtttttgaagttgatggagacagtgatgattgtgtaatgcgttggttttgttagGTGAAATACTGTTCTGAGAACAACAAGCGTCTCATTCACTTTTCTACCTGTGAAGTTTATGGAAAAACCATTGGAAGCTTTCTTCCTAAGGATCATCCTC

upper sequence: GLYMA11G19550.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 3'ss of exon 2
----------------gtaactaactaaccacctgttcaaattgaaaat----gtgaaacgctgaatcttgagggtttgagttctatgcgacgt-cgttttgt----gctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC
                 |   | | |        || |||    || ||    || |     |   | |   ||   |  |||  |   || || |||||||     ||| | ||||||||||||||||| |||||||||||||| || || || ||||| ||||| ||||| || ||||||||||||||   |||||| || ||||||   || |
gtatgctgttggatgcttgtttgaattcgttttcgtccaaggataatattgttgttagtttttttgtttctcggaaatctgttgaagctgatgtgcgttttgatgtggctctttagGTGAAATACTGTTCGGAGAACAACAAGCGTCTCATTCACTTCTCGACTTGTGAAGTCTATGGGAAAACGATTGGGAGCTTTCTTCCCAAAGATTCACCCC

upper sequence: GLYMA11G19550.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 3'ss of exon 2
----------------gtaactaactaaccacctgttcaaat-tgaaaatgtgaaacgc-----tgaatcttgagggt---ttgagttctatgcg-acgtcgttttgtgctttg-----------tagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC
                 |   | | | |      |||||||  | |   ||| |   |      ||  ||| |    |   ||||     |||    ||| | |||| | ||||           ||||||||||||||||| || ||||||||||| || || || ||||| ||||| ||||| || ||||||||||||||   |||||| || ||||||   ||||
gtatgctgttggatgtttgtttgaattatttttcgttcaaagataatgttgttatttgtctttttgtttctcggaaatctgttgaagctgatgtatgcgttgatttgcgttttgatgtggctttttagGTGAAATACTGTTCAGAAAACAACAAGCGTCTCATTCACTTCTCGACTTGTGAAGTCTATGGGAAAACGATTGGGAGCTTTCTTCCCAAAGATTCACCTC

upper sequence: GLYMA11G19550.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ07025 (Selaginella moellendorffii), 3'ss of exon 2
-----------------------gtaactaactaaccacctgttcaaattgaaaatgtgaaacgctgaatcttgag---ggtttgagttctatgcgacgt---cgttttgtgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC
                       ||  | |           ||||   || | |   ||| | | ||  | | |||     |||  | | | ||  || |    |  |          |||| | ||| || || || |||||||||||| | |||||||| || || ||||||||||| || ||||||||||||  |||| | ||  | || ||| |  
gtaagtcggtattttttcttagcgtttccagagtgtttttagttcttttttagagcttgata-gttgtttttagagcttattttttgctttttggaacttaagtgactgagaacgaacagGTTAGATATTGCTCGGACAACAACAAGCGCTTGATCCATTTTTCTACGTGCGAAGTGTATGGAAAAACGATTGGAAGCTTTTTGCCCGAGGACAGTTCCT

upper sequence: GLYMA11G19550.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ18978 (Selaginella moellendorffii), 3'ss of exon 2
-----------------------gtaactaactaaccacctgttcaaattgaaaatgtgaaacgctgaatcttgag---ggtttgagttctatgcgacgt---cgttttgtgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC
                       ||  | |           ||||   || | |   ||| | | ||  | | |||     |||  | | | ||  || |    |  |          |||| | ||| || || || |||||||||||| | |||||||| || || ||||||||||| || ||||||||||||  |||| | ||  | || ||| |  
gtaagtcggtagtttttcttagcgtttcgagagtgtttttagttcttttttagagcttgata-gttgtttttagagcttattttttgctttttggaacttaagtgactgagaacgaacagGTTAGATATTGCTCGGACAACAACAAGCGCTTGATCCATTTTTCTACGTGCGAAGTGTATGGAAAAACGATTGGAAGCTTTTTGCCCGAGGACAGTTCCT

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|7478600|gb|AW666329.1|AW666329
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|209702421|gb|BW656397.1|BW656397
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|298195051|gb|HO043579.1|HO043579
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|208177260|gb|GD980013.1|GD980013
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTA
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTA
EST: gi|7283460|gb|AW596067.1|AW596067
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|33390053|gb|CA853260.1|CA853260
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|208323978|gb|GE124439.1|GE124439
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|298198329|gb|HO039868.1|HO039868
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|10237322|gb|BE806210.1|BE806210
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|9440275|gb|BE440783.1|BE440783
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|27445843|gb|CA952966.1|CA952966
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|18039430|gb|BM307724.1|BM307724
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
EST: gi|14008730|gb|BG725334.1|BG725334
EST:     CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTG                         GTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC
genomic: CTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaact ... tgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactaactaaccacctgttcaaattgaaaatgtgaaacgctgaatcttgagggtttgagttctatgcgacgtcgttttgtgctttgtagGTGAAATACTGTTCCGAGAACAACAAGCGCCTTATCCATTTCTCCACTTGCGAAGTGTACGGGAAAACGATTGGAGCCTTTCTCCCTAAAGATAGTCCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG