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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGACTAGAACCAAACTCATTGCAGTTATCTGGGTCAACAAAGACTGTGCTTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaagcttcactctttccaagcttctcatttataattgagttaactggttcatccccatgttttaatatgcccttctgaatattgttcagtttat...

Basic information

species Glycine max
transcript GLYMA03G27460.2
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G27460.2 (Glycine max), 5'ss of exon 16
lower sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 17
CGGACTAGAACCAAACTCATTGCAGTTATCTGGGTCAACAAAGACTGTGCTTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaagcttcactctttccaagcttctcatttataattgagttaactggttcatccccatgttttaatatgcccttctgaatattgttcagtttat
 ||| | || || |||    ||    | || || ||||  ||||| || ||||| ||| | ||||| |||||||| || ||||||||||||||| ||||||||     |   |||     |  |||   |    |||| ||        |||  |  | |||||||| | ||  |   || |    |             
TGGATTGGACCCGAACGTGATGAGAGTTTCGGGATCAAAGAAGACAGTACTTACCTCTACCAATGTGATGGATGAAAATTCCTTCTCACAGCCAGAGAAGgta-----aaaatcaagagatggaagaaacatcattatcatcacaaattctgagt-gttcccatgttcttattggtttttatttgcag------------
















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|51337485|gb|CO981351.1|CO981351
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|105632616|gb|DW246476.1|DW246476
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|12496135|gb|BG046912.1|BG046912
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|298166525|gb|HO009964.1|HO009964
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|9899207|gb|BE608105.1|BE608105
EST:     TTACATCTGCCAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCACTCCAAAGTCTACTTCAGAATGGTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|209697031|gb|BW667021.1|BW667021
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGGAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|51335508|gb|CO979374.1|CO979374
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|22929130|gb|BU546269.1|BU546269
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|16104856|gb|BI892596.1|BI892596
EST:     TTACATCTGCTAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|10710450|gb|BF010168.1|BF010168
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|23734204|gb|BU765335.1|BU765335
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|105638020|gb|DY577276.1|DY577276
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GCGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
EST: gi|21256238|gb|BQ453126.1|BQ453126
EST:     TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAG                         GTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT
genomic: TTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaag ... gtggtttcagGTGGTGCCAATCCAAAGTCTACTTCAGAATGTTGGAAAGGACATGAATGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGGACTAGAACCAAACTCATTGCAGTTATCTGGGTCAACAAAGACTGTGCTTACATCTGCAAATGTAATGGATGAGAACTCCTTCTCACAGCCAAAGAAGgtacctcaagcttcactctttccaagcttctcatttataattgagttaactggttcatccccatgttttaatatgcccttctgaatattgttcagtttat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG