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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaggaaagtaaggtattgtgtgatttactcattttaaatccctattaatttcttgttcattgattatttatttcttcttttctctgattttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGTGACATCAAACCTCAGAACCTACTT

Basic information

species Glycine max
transcript GLYMA12G28730.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G28730.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G138676_T03 (Zea mays), 3'ss of exon 5
---gaaggaaagtaaggtattgtgtgatttactcattttaaatccctattaatttcttgttcattgattatttatttc--ttcttttctctgattttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGTGACATCAAACCTCAGAACCTACTT
          ||| |   | | | |   |  || |  ||   |   | | |  | |    ||   ||||  |  |||   ||  ||| ||| ||||   |||||||| ||| | || |||||||||||||||||||||||||| || || || ||||| |||||||| |||||  | |||
caatcgttggagtcaaacaatttctagctgccttacctt---ttagtgtca--tacccaatcgcagatttctgctttgcattaatttatctaatttgtcctgcagATATGCCGAGCGCTTGCTTATATACATAACTGCATTGGCATCTGCCACCGTGATATCAAACCGCAGAATGTTCTT

upper sequence: GLYMA12G28730.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G09840.6 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------gaaggaaagtaaggtattgtgtgatttactcattttaaatccctatta-atttcttgttcattgattatttattt--cttcttt------tctctgattttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGTGACATCAAACCTCAGAACCTACTT
                              ||      |      || ||     || |  || ||||| | |   | |||  |  | |  ||  | ||  |    | | |||      | |||| |  |||   |||||||||||||| |||||||| || ||||| | | ||||| | ||||| ||||| ||||| ||||| ||||| || 
gtaactatttcctacatttgaaccttttttaatcttttttgtagtttttgcttcataatatttgtaaatgcatgccagattgataatccgctgggttttcttcaaacatttttgataagtttctgttaatggtgacagATTTGCAGGGCGCTTGCTTACATCCATAATTCCTTTGGTCTTTGTCACCGTGATATCAAGCCTCAAAACCTGCTG

upper sequence: GLYMA12G28730.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 4
gaaggaaagtaaggtattgtgtgatttactcattttaaa---tccctatt--aatttcttgttcattgattatttatttcttctt-ttctctgattttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGTGACATCAAACCTCAGAACCTACTT
     |||   |  | | |  |  |||| ||| | |||    |   || |  | ||  |  || ||| || ||  ||| ||  || |||||| | | ||| || |||| ||||| || ||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||||||| |||||
-----aaaaacatatgtagcttatttta-tcactgtaagggttatgtactggagttgataattgatttatcatgcattactaattattctcttactctggttgtagATCTGCAGAGCGCTTGCGTATATACATAATTGCATTGGTATTTGTCACCGTGACATCAAGCCTCAGAACTTACTT

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|21678169|gb|BQ630520.1|BQ630520
EST:     GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAG                         ATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
genomic: GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAGgtatgtaatt ... ttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
EST: gi|151408852|gb|EV278660.1|EV278660
EST:     GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAG                         ATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
genomic: GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAGgtatgtaatt ... ttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
EST: gi|151408377|gb|EV278185.1|EV278185
EST:     GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAG                         ATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
genomic: GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAGgtatgtaatt ... ttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
EST: gi|192295002|gb|FG986721.1|FG986721
EST:     GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAG                         ATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
genomic: GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAGgtatgtaatt ... ttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
EST: gi|37995772|gb|CF807361.1|CF807361
EST:     GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAG                         ATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT
genomic: GGATTAACCAGCGAATGCCTTTAATATATGTAAAGCTTTATACCTACCAGgtatgtaatt ... ttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatttcttgttcattgattatttatttcttcttttctctgattttggctgcagATTTGCAGGGCCCTTGCTTATATACATAACTGCATTGGTATATGTCATCGTGACATCAAACCTCAGAACCTACTT
                   ttatttatttcttctt  CT-rich tract
              attgattatttatttc  TA-rich tract