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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAATAAATGTGTACCTTGAATTGCTGAAAGAGAGGGAGAGAAGAGAGCCACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgcttttactatctgtataaactgaatagtgcttgcacacacatgcacctgtccactgtgctttgttaggtttcatttctttcatggaaagtaa...

Basic information

species Glycine max
transcript GLYMA07G37640.4
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G37640.4 (Glycine max), 5'ss of exon 4
lower sequence: AT3G06910.1 (Arabidopsis thaliana), 5'ss of exon 4
GTAATAAATGTGTACCTTGAATTGCTGAAAGAGAGGGAGAGAAGAGAGCCACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgc--ttttactatctgtataaactgaat---agtgcttgcacacacatgcacctgtccactgtgctttgttaggtttcatttctttcatggaaagtaa
|| || ||| | ||  | | |||||||||||| |||||    ||||| ||| |||||||||| || ||||||||||||| ||| ||||||| ||  | ||| | |  |  || ||       |  ||  | |||   ||  | |  | |  |       | |  ||         |||  ||  ||  |      |        
GTCATTAATCTTTATATGGTATTGCTGAAAGAAAGGGAAGCTAGAGAACCAAAGAAGTTTCTTAAATGTCATTTTTTCAATACATTTTTCTTCACTAAGgttatacccatttctatggctaatgaaatttaaattttagcccctatatatgctcatgaatattaacaagaagacattaccttaaatcacacctcag--------
















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|193564183|gb|FK516694.1|FK516694
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|207685555|gb|GD667669.1|GD667669
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|193541839|gb|FK496609.1|FK496609
EST:     AAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: AAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|208298330|gb|GE089723.1|GE089723
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|193357955|gb|FK318967.1|FK318967
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTT-CTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|208252534|gb|GE043886.1|GE043886
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|193622272|gb|FK567716.1|FK567716
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|193719467|gb|FK651855.1|FK651855
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTC-ACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|193651025|gb|FK597590.1|FK597590
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|193619692|gb|FK570860.1|FK570860
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
EST: gi|208178234|gb|GD975779.1|GD975779
EST:     CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGG                         TTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC
genomic: CACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgct ... tacttaccagTTAATAAGTGGCAAGAATGGGTATGATTTCAAATCTGTGAGGAGATGGACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAATAAATGTGTACCTTGAATTGCTGAAAGAGAGGGAGAGAAGAGAGCCACAGAAGTTTCTGAACTGTCATTTTTTCAGTACCTTTTTCTACAAGAGGgtaacatgcttttactatctgtataaactgaatagtgcttgcacacacatgcacctgtccactgtgctttgttaggtttcatttctttcatggaaagtaa

- - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG