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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACATGTAGCTACCAAATATCCTGGTATCAAGTACAACGAGATTATTGTCGATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagttaattggttactatagtatcatcttcccttccctttccaatctaaatctcttctcgtgttattatctcag

Basic information

species Glycine max
transcript GLYMA14G00500.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G00500.1 (Glycine max), 5'ss of exon 1
lower sequence: AT4G35260.1 (Arabidopsis thaliana), 5'ss of exon 2
ACATGTAGCTACCAAATATCCTGGTATCAAGTACAACGAGATTATTGTCGATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagttaattggttac-tatagtatcatcttcccttccctttccaatctaaatctcttctcgtgttatt-atctcag------------------
  | || || |  || |||||  | ||||  ||||| || || ||||| ||||| ||||| |||||||||||  ||||||||||||| |||||||| |||||  |||    | ||   ||| |||    |    |  | |||  |      || |  | |    | | |  |   ||  |||                  
CGAGGTTGCGAAAAAGTATCCCAGCATCACCTACAATGAAATCATTGTTGATAACTGCTGTATGCAACTTGTAGCCAAACCAGAGCAATTCGATGTCATGgtatgtttcagagttatatacatatgaattttcatgacgttctttaagtcttcgatgttttactttgagaaaaagataccagtcatctctccctagtttg
















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|22928993|gb|BU546132.1|BU546132
EST:     ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATG                         GTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
genomic: ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagt ... attatctcagGTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
EST: gi|7924578|gb|AW830604.1|AW830604
EST:     ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATG                         GTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
genomic: ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagt ... attatctcagGTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
EST: gi|298199186|gb|HO042549.1|HO042549
EST:     ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATG                         GTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
genomic: ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagt ... attatctcagGTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
EST: gi|24205490|gb|BU964743.1|BU964743
EST:     ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATG                         GTGACTCCTAATCTCTATGGAAATCTAGTGGCTA
genomic: ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagt ... attatctcagGTGACTCCTAATCTCTATGGAAATCTAGTGGCTA
EST: gi|193612976|gb|FK565079.1|FK565079
EST:     ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATG                         GTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
genomic: ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagt ... attatctcagGTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
EST: gi|22927386|gb|BU544525.1|BU544525
EST:     ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATG                         GTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
genomic: ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagt ... attatctcagGTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
EST: gi|208163744|gb|GD963272.1|GD963272
EST:     ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATG                         GTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT
genomic: ATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagt ... attatctcagGTGACTCCTAATCTCTATGGAAATCTAGTGGCTAATACGGCAGCTGGAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACATGTAGCTACCAAATATCCTGGTATCAAGTACAACGAGATTATTGTCGATAATTGCTGCATGCAACTTGTCTCCAAACCAGAGCAGTTCGATGTTATGgttagttagttaattggttactatagtatcatcttcccttccctttccaatctaaatctcttctcgtgttattatctcag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG