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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccactaggattttcatgcatttggctcattttctatttttatttcaacatggaaagttggtgctaatcactattttcctgtcttacag

Basic information

species Glycine max
transcript GLYMA16G33230.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 5'ss of exon 5
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcata---ttacatgata-gtttttctttcgccactaggattttcatgcatttggctcattttctatttttatttcaacatggaaagttggtgctaatcactattttcctgtcttacag
|| ||||||||||| |||||||| || |||||||| |||||||| | || || || || ||||||||||| || |||||||| || || ||||||||||| || ||| || || | | ||| | | || | || || ||| | | | || |||||
TGCTAAATCCATGAAGTTCAAGGACGGATACATGATTTCTTCTGGTTATCCTGTTAACTTGTATATTGACTCTGCTGTTAGACATGTTCTTCTGAGACAGgtttgtacataaaatccatccgtttgaataaaatgttgctgtctccttgtgatagcttgaatttttttcttagaagctgcttcttgttttcag-----------------------------------------

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 5
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccactaggattttcatgcatttggctcattttctatttttatttcaacatggaaagttggtgctaatcactattttcctgtcttacag
|| || || ||||| |||||||||||||||||||| |||||||| || || ||||| |||||||| || || ||||||||||| || | ||||||||||| | || | ||| | ||| || || | | | || | || || | | || |||| || | || |
TGCTAAGTCTATGAAGTTCAAGGATGGGTACATGATTTCTTCTGGTCATCCTGTCAACCTATACATTGATTCAGCTGTGAGACATGTTCTATTGAGACAGgtttggtgct-----tggtatcagatgttatcttattatgcaaacatataacaaaatagctgttag-taatactctagttg-acttggcttcag------------------------------------

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G31610.1 (Arabidopsis thaliana), 5'ss of exon 4
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccact-aggattttcatgcatttggctcattttctatttttatttcaacatggaaagttggtgctaatcactattttcctgtcttacag
|| || |||||||| ||||||||||| |||||| | || ||||| |||||| ||||| ||||| || |||||||||||||||| | || |||||||| ||||| ||| || ||| | | | ||| | || | | | | | | | | || || ||||| | | |
TGCTAAGTCCATGAAGTTCAAGGATGGTTACATGGTTTCATCTGGTCAACCAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctt-----tctaatg---------agtctcttatctaccatttagtgagtaagtataccggctttgtctaatcttgttggttcaatccgtatttgcag----------------------------

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G53870.1 (Arabidopsis thaliana), 5'ss of exon 4
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccactaggattttcatgcatttggctcattttctatttttatttcaacatggaaagttggtgctaatcactattttcctgtcttacag
|||||| || ||||| ||||| ||||| |||||| | || ||||| |||||| ||||| ||||| |||||||||||||||||||| | || ||||| || | ||| | | | || | | ||| || | | | | | | | | | | | || | || ||| |
AGCCAAGTCTATGAAGTTCAAAGATGGCTACATGGTGTCATCTGGTCAACCAACTAAGGAATACATAGACTCTGCAGTGAGACATGTTTTGCTTAGACAAgtgagtttc-gtctgagttgtt-cttattagagttaagtaaaaaatcaaca-------acgtctaattaaagtgttgtta--aaccgaatatgtag----------------------------------

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 5'ss of exon 5
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccactaggattttcatgcatttggctcattt-tctatttttatttcaacatggaaagttggtgctaatcactattttcctgtcttacag--------
|||||||||||||| || ||||||||||||||||| |||||||| || ||||||||||| || |||||||| || ||||||||||| || |||||||||||||||||| | | || | | || | | |||||| || || ||| |||| | | || | || | | ||| | || | || || |||| | | | ||| |
TGCCAAATCCATGAAGTTTAAGGATGGGTACATGATATCTTCTGGTCAGCCAGTCAAGGAATATATTGACTCAGCTGTGAGACATGTGCTTCTAAGACAGgtttgcttcactcacccagttgatctgttcatgcttctttt--tgttaacatcctcaaccattgcggtggttcatacggttgcttaccttcattgcaattgtgtcctgatcatgttctggattgcttgccatcaaacag

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S29_222V6.1 (Physcomitrella patens), 5'ss of exon 5
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccactaggattttcatgcatttggctcattttctatttttatttcaaca--tggaaagttggtgctaatcactattttcctgtct-tacag------------------------------
||||| || ||||||||||||||||| ||||||||||| || ||| || ||||| ||||| |||||| ||| || ||||| || | || | ||||| | |||| | || | || || || | | || ||| | | ||| || | | || | || | | | | ||| | | ||| |||| || || ||| |
GGCCAAGTCTATGAAATTCAAGGATGGCTACATGATCTCATCCGGAAGCCCCGTCAATGATTATATTGACAGTGCCGTTAGACACGTTATGCTGCGTCAGgtattaacagatttttttgatacccctatgtttactcctccttgtgcagaattaatcttcgattgtttccatccttgcattatactaaatagttctataattgaggtt--tcattattccgttggctctactgagcctgaattgaagctattccttcttgcag

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S127_74V6.1 (Physcomitrella patens), 5'ss of exon 5
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccactaggattttcatgcatttggctcattttctatttttatttcaacatggaaagttggtgctaatcactattttcctgt-cttacag
|| || |||||||| ||||||||||| ||||||||||| ||||| || ||||| |||||||| ||| ||| || |||| || | | | ||||| | || | || | ||| | | ||||| ||||| | | ||| | | || || | || | | || || || | | | || ||| | | ||||||
TGCTAAGTCCATGAAGTTCAAGGATGGTTACATGATCTCATCTGGGAGCCCTGTCAACGATTACATCGACAGTGCCGTCCGACACGTTATGTTGCGTCAGgtacacaag-atgcttgatgtccgtcagtagctcctttttcgt-actagaa-----agatatt-gattgatagtcggtgttc---ccgaagtg--aatctgaagtggaggattactttggtatgtttacag

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|214004318|gb|DB985028.1|DB985028
EST:     CAGTCAAGGATTACATTGTGACAGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192304937|gb|FG997091.1|FG997091
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|120494936|gb|EH223103.1|EH223103
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|7326385|gb|AW620194.1|AW620194
EST:     TCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: TCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|23729062|gb|BU762613.1|BU762613
EST:     CAGTCAAGGATTACATTGACTCGGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|7028301|gb|AW458084.1|AW458084
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|151396319|gb|EV266196.1|EV266196
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCGAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192303929|gb|FG995243.1|FG995243
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTA
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTA
EST: gi|37994367|gb|CF806113.1|CF806113
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|7639366|gb|AW733690.1|AW733690
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|193518116|gb|FK476989.1|FK476989
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|21639077|gb|BM140123.1|BM140123
EST:     CAGTCAAGGATTACATTGACTCGGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192303930|gb|FG995244.1|FG995244
EST:     CAGTCAAGGATTACATTGACTTTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|208328152|gb|GE127476.1|GE127476
EST:     CAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|193449304|gb|FK412041.1|FK412041
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192295866|gb|FG992647.1|FG992647
EST:     CAGTCAAGGATTACATTGACTTTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192305016|gb|FG996134.1|FG996134
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|23726767|gb|BU761386.1|BU761386
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|58025435|gb|CX712176.1|CX712176
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192326432|gb|FK017704.1|FK017704
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|7284851|gb|AW597338.1|AW597338
EST:     TCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: TCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|58015115|gb|CX701857.1|CX701857
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|58022174|gb|CX708915.1|CX708915
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|13788927|gb|BG651518.1|BG651518
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192295865|gb|FG992646.1|FG992646
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAG-TTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|58022463|gb|CX709204.1|CX709204
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttct ... tgtcttacagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCCAAATCCATGAAATTCAAGGATGGGTACATGATCTCTTCTGGACAACCAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTCCTCCTAAGACAGgtttgcttctatttctcatattacatgatagtttttctttcgccactaggattttcatgcatttggctcattttctatttttatttcaacatggaaagttggtgctaatcactattttcctgtcttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG