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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACAAAGGATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtatttttcattctttttgtctttttattatgaattatttcctgtagtaagatgtttcttcagtcttcacatattttaaggtgctgctgaatagtt...

Basic information

species Glycine max
transcript GLYMA08G09180.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G09180.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G63980.1 (Arabidopsis thaliana), 5'ss of exon 6
GCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACAAAGGATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtg----tgtatttttcattcttt----ttgtctttttattatgaattatttcctgtagtaagat--gtttcttcagtcttcacatattttaaggtgctgctgaatagtt
||||| |||||||||||||| |||||||| || || || ||||| ||||||||||| ||||| || ||||| ||||  |||||    || ||||| || |||     |  |  || |  ||| |     |   ||| || | |  |        ||||   ||||  |       ||  |     |  |||  ||||| |          
GCTTTATCAAGAGGAGATGGAGCTATATACTTACGGTTTCCTCATAAAGGATACCGCGAAAAGATTTGGGACCATGTCGCTGGTGCTATAGTTGTTACAGgtaacattaaagcttactctctatgaagctaattttatagtgtcgacatgcggatgtaaatagataaggaatgcaaggttgattcttctttttggtgcag----------

upper sequence: GLYMA08G09180.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv04s0044g01480.t01 (Vitis vinifera), 5'ss of exon 7
GCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACAAAGGATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtatttttcattctttttgtctttttattatgaattatttcctgtagtaagatgtttcttcagtcttcacatatt-ttaaggtgctgctgaatagtt
||| | || |||||||||||||| || ||| | || |||||||| |||||||| |||||||||||||||||||||||||||||  ||||||||||||| |||    |    ||| |||   | |  ||   ||||   |  ||   ||    || |||       | || |     | |      ||   | |  | |   
GCTCTATCCAGAGGAGATGGGGCCATTTATCTTCGCTTCCCTCATAAAGGATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaacctcagtctgccttttcttggtttatttctatttatgtgagagaaaatgaaaaagaaatcgtagtgcactacctttgtttagttacaaaac-
















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|6914998|gb|AW396528.1|AW396528
EST:     ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
EST: gi|209712036|gb|BW674181.1|BW674181
EST:     ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
EST: gi|12497023|gb|BG047358.1|BG047358
EST:     ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
EST: gi|7690873|gb|AW759009.1|AW759009
EST:     ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
EST: gi|5677094|gb|AI938224.1|AI938224
EST:     GAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: GAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
EST: gi|10252825|gb|BE820591.1|BE820591
EST:     ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
EST: gi|51344888|gb|CO985621.1|CO985621
EST:     ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
EST: gi|6725411|gb|AW309810.1|AW309810
EST:     ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTG                         AAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA
genomic: ATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtattt ... acttctgtagAAGCTGGAGGTATCGCCATGGATGCTGCGGGGAACCCTCTGGACTTTTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACAAAGGATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtatttttcattctttttgtctttttattatgaattatttcctgtagtaagatgtttcttcagtcttcacatattttaaggtgctgctgaatagtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT