Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAATATGTATTCAGAGTTGCGGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttcaattcatgctttgatgaagttactgggaatcagcatatgaaataatggttactttggcttcacacctcttgcttggatctattgacacat...

Basic information

species Glycine max
transcript GLYMA06G06030.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G06030.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0008g02100.t01 (Vitis vinifera), 5'ss of exon 4
CAAATATGTATTCAGAGTTGCGGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttcaa---ttcatgcttt---gatgaagttactgggaatcagcatatgaaataatggttactttggcttcacacctcttgcttggatctattgacacat
||||||||||||| ||| |||||||||| |||||||| |||||| || ||||||||||||||||||| |||||   |||| ||   ||| ||  ||    ||   |||  | || || |  | || |    ||  ||  |      |||    |  ||  ||   | |         
CAAATATGTATTCTGAGCTGCGGGAAGAAGCTCGTGACCATGCACGCCTACGTAATGCATATTTTGAACAGgtatatcttaaaattttcttgtgttctaaattttgttcttaggtataaatacatcaggacatcatttgtagaatgtcatgtgttgtgactgtggccaaaa------
















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|66267155|gb|DR007282.1|DR007282
EST:     GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAG                         GCACAGCAAGCCTATTTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
genomic: GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
EST: gi|23727551|gb|BU761810.1|BU761810
EST:     GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAG                         GCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
genomic: GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
EST: gi|24205319|gb|BU964572.1|BU964572
EST:     GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAG                         GCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
genomic: GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
EST: gi|192324671|gb|FK016832.1|FK016832
EST:     GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAG                         -CACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGA-CTAAGT
genomic: GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
EST: gi|117557816|gb|EG702201.1|EG702201
EST:     GGGAAGAGGCTCGTGATCATGCACGCTTACGTAATGCATATTTTGAGCAG                         GCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
genomic: GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
EST: gi|214009325|gb|DB990615.1|DB990615
EST:     GAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAG                         GCACAGCAAGTAC-ATCGAATTGGTAATAAAGCCCTAGCAAAGGAACTAAG
genomic: GAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAG-CCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAG
EST: gi|151409164|gb|EV278972.1|EV278972
EST:     GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAA                         GCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
genomic: GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
EST: gi|6964547|gb|AW433240.1|AW433240
EST:     GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAG                         GCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT
genomic: GGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttc ... ttgaaaacagGCACAGCAAGCCTATCTTATTGGTAATAAAGCCCTAGCAAAGGAACTAAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAATATGTATTCAGAGTTGCGGGAAGAGGCTCGTGATCATGCATGCTTACGTAATGCATATTTTGAGCAGgtgggtcttcaattcatgctttgatgaagttactgggaatcagcatatgaaataatggttactttggcttcacacctcttgcttggatctattgacacat

- - - - - - - - - - - GGAAGA
- - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG