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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATAAGTGCAGCTATGTTGACAGCAAGAGCTGGTGCTCGGGATCCATCAGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatattattgtttgtgatttgctgatagtttcctggtgtacactgtacccatatcagatcggttaatagattgccattgtaaaatgtcacttcag...

Basic information

species Glycine max
transcript GLYMA18G50960.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G50960.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G38880.1 (Arabidopsis thaliana), 5'ss of exon 7
GAAATAAGTGCAGCTATGTTGACAGCAAGAGCTGGTGCTCGGGATCCATCAGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatattattgtttgtgatttgctgatagtttcctggtgtacactgtacccatatcagatcggttaatagattgccattgtaaaatgtcacttcag----
|| |  | ||| ||| | || || || |||||||||||  | |||||||| ||||| ||||| ||||||||| |||| ||||| ||||| |||||||| ||| || || || || || ||  |||  | | |   |||  |     |  || |   | || |  |    | ||  ||  |||||  ||    |  || |     
GAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaag-atttttttcttcgtttttttttca-aaaatccaaggacgtatagttcatctctctggacaaaaatta--tttgcattgacaaggagctttttaatgaa

upper sequence: GLYMA18G50960.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv14s0083g00990.t01 (Vitis vinifera), 5'ss of exon 7
GAAATAAGTGCAGCTATGTTGACAGCAAGAGCTGGTGCTCGGGATCCATCAGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatattattgtttgtgatttgctgatagtttc---ctggtgtacactgtacccatatc---agatcggttaatagattgccattgtaaaatgtcacttcag
|||| || ||| ||| |||| || ||||||||||||||  |||||||||||||||||||||| ||||| || ||||| ||||| ||||| |||||||| ||| ||| | || ||        |||    ||   ||     ||||| | | ||||       |   ||||  | |  |   |  || || |  |   | |      
GAAAAAAATGCTGCTTTGTTAACTGCAAGAGCTGGTGCCAGGGATCCATCAGCAATTCCATCCATATGCCGAGTTTCTGCTGCTCTTCAATATCCTGCTGgtaagttttttgtttacctaagtttaagcatgcattggtgttggtggatagtgtattataggctatagatatgatgctcagtaacctttttggacaataa------
















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|193387940|gb|FK354757.1|FK354757
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|207702067|gb|GD681520.1|GD681520
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|193329821|gb|FK295729.1|FK295729
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGT
EST: gi|193330970|gb|FK297246.1|FK297246
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|208283911|gb|GE081995.1|GE081995
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|193358381|gb|FK324083.1|FK324083
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|208096408|gb|GD892129.1|GD892129
EST:     CCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGTATCTGTGCTGGAGTCCCTGGAGT
genomic: CCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|193602796|gb|FK560249.1|FK560249
EST:     CACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: CACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|193396422|gb|FK362778.1|FK362778
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTTGGTTCTAGCATCTGTGCTGGAGTCCCTGGA
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCT-GGT-CTAGCATCTGTGCTGGAGTCCCTGGA
EST: gi|207690056|gb|GD671441.1|GD671441
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|207767748|gb|GD740720.1|GD740720
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCTG                         GCTTGGAGGGTTCAGATGCAGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|208100287|gb|GD898429.1|GD898429
EST:     CCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGTATCTGTGCTGGAGTCCCTGGAGT
genomic: CCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|193436512|gb|FK402062.1|FK402062
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|208252603|gb|GE043913.1|GE043913
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|193708047|gb|FK641975.1|FK641975
EST:     CTGCACTTCACTATCCTGCTG                         GCTTGGAGGGTTCAGATGCAGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: CTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|7285565|gb|AW598052.1|AW598052
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCTG                         GCTTGGAGGGTTCAGATGCAGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|207825241|gb|GD795104.1|GD795104
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGACGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|193700855|gb|FK638592.1|FK638592
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAGTCCCTGGAGT
EST: gi|208302669|gb|GE097886.1|GE097886
EST:     AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGG                         GCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGAAGTCCCTGGAG
genomic: AGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatat ... aaatggacagGCTTGGAGGGTTCAGATGCTGGTCTAGCATCTGTGCTGGA-GTCCCTGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAATAAGTGCAGCTATGTTGACAGCAAGAGCTGGTGCTCGGGATCCATCAGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatattattgtttgtgatttgctgatagtttcctggtgtacactgtacccatatcagatcggttaatagattgccattgtaaaatgtcacttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC