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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTATGGTGCAACAGGCTATGCAATATATTGACGAGACACCAGATATCGAAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgctatgtttgaacttttgtttgttttttaatttttcattattggattatgtatgatttatatgtttttatcatttattag

Basic information

species Glycine max
transcript GLYMA08G15340.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G15340.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 3
AGCTATGGTGCAACAGGCTATGCAATATATTGACGAGACACCAGATATCGAAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc-tatgtttgaacttttgtttgtttttta---------atttttcattattggattatgtatgatttat-atgtttttatcatttattag
 || ||||| || || |||||||| ||||||||| ||||||| ||||| ||| ||   || || ||||| |||||  | ||||||||||||||||| ||||||  |     ||| | | |  ||  | || | || |           |||||  || ||      | | |  || || || | |  || |||   |||
TGCAATGGTCCAGCAAGCTATGCAGTATATTGACCAGACACCGGATATTGAATCTAAGATTGAGCTCATTAAAACACTTAACAGTGTGTCTGCAGGAAAGgtcaatacatatatctataagtttcagcttatattatgttggacaatgtttttttttgttttgagctttttagttaattatatctgcattattatgtag
















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|14990252|gb|BI315925.1|BI315925
EST:     GAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: GAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|308097990|gb|HO761161.1|HO761161
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|308098358|gb|HO760099.1|HO760099
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|308098130|gb|HO761301.1|HO761301
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|254320644|gb|GR827093.1|GR827093
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGC
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGC
EST: gi|192296110|gb|FG989470.1|FG989470
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|6566939|gb|AW234570.1|AW234570
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|15286081|gb|BI469972.1|BI469972
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|192334269|gb|FK024396.1|FK024396
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGCGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|19054166|gb|BM732833.1|BM732833
EST:     GTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: GTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|18734293|gb|BM528099.1|BM528099
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|15284757|gb|BI468648.1|BI468648
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
EST: gi|12690044|gb|BG156380.1|BG156380
EST:     AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAG                         ATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT
genomic: AAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgc ... catttattagATATACGTGGAAATTGAGAGAGCTCGATTGATCAAAAAACTTGCAAAGATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTATGGTGCAACAGGCTATGCAATATATTGACGAGACACCAGATATCGAAACTCGCATAGAACTCATCAAAACGTTGAACAGTGTGTCTGCAGGGAAGgtcggtgtgctatgtttgaacttttgtttgttttttaatttttcattattggattatgtatgatttatatgtttttatcatttattag

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