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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAATCATTGGTAATTGTGGCAAGTTCATCAGATTTACTACTGCGAGCCACAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatttcaacaagtgtattgttatattgtgtgtgatttctatgttccgtattatatttaattagtttatcaattggtgttcaataatctctgcgt...

Basic information

species Glycine max
transcript GLYMA10G36600.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36600.2 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os01g08700.2 (Oryza sativa), 5'ss of exon 14
AGAATCATTGGTAATTGTGGCAAGTTCATCAGATTTACTACTGCGAGCCACAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt---tcaacaagtgtattgttata---ttgtgtgt-gatttctatgttccgtattatat---ttaattagtttatcaattggtg---ttcaataatctctgcgt----
|||| ||||||| ||  | || ||| | |||||| | || || ||||| || ||||| ||||| |||||||| |||||||| |||||||||||  | ||||||  |  ||   |||  | ||   | | |  |       |||  || |  |  ||||    || |||   | |  | | |||   |  |||     ||   |     | ||     
AGAAGCATTGGTGATCCTTGCTAGTGCTTCAGATCTTCTTCTTCGAGCAACTGATGGAATGCTTGTTGATGGTGAAGCTTGTACTTTACCACAATTAGAGgtaacaccttcattcatgaggtccttaggtgcaaatcccagtgaagaataatcagttctactttgtatggttcatctcgcttactgaccggttcatctcgggatcaattacgagcag

upper sequence: GLYMA10G36600.2 (Glycine max), 5'ss of exon 13
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 5'ss of exon 12
AGAATCATTGGTAATTGTGGCAAGTTCATCAGATTTACTACTGCGAGCCACAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatttcaacaagtgtattgttatattgtgtgtgatttctatgttccgtattatatttaattagtttatcaattggtgttcaataatctctgcgt
 || ||| |||| ||| | |||||| |||||||| | || ||||| || || ||||| ||||| ||||||||||||||||| || ||||| || || |||||| |  | |   | |     |||| | |  |   ||   ||  |  |    |  | ||| | | ||  |   || | ||   || ||  |  | |||  
TGAGTCACTGGTGATTCTCGCAAGTGCATCAGATCTTCTTCTGCGGGCAACTGATGGAATGCTTGTTGATGGAGAAGCTTGTACATTACCTCAACTTGAGgtactgcactgttatag----attgctct--tcaatgcccttcttcgggctagagtaataatcattttctgattccactgtattttaa--acttttgcag

upper sequence: GLYMA10G36600.2 (Glycine max), 5'ss of exon 13
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 5'ss of exon 14
AGAATCATTGGTAATTGTGGCAAGTTCATCAGATTTACTACTGCGAGCCACAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatttcaacaagtgtattgttatattgtgtgtgatttctatgttccgtattatatttaattagtttatcaattggtgttcaataatctctgcgt---
 |||||  | |||||| || ||||| | |||||| | || || || ||||||||||| ||||| || ||||||||||| ||||| ||||| ||  ||||||||| ||  || |  || |  | | | || |  |        |  ||   |   |  || | || | |      || |        | | || |||  ||   
TGAATCGCTAGTAATTTTGTCAAGTGCTTCAGATCTTCTTCTACGTGCCACAGATGGAATGCTTGTGGATGGAGAAGCATGCACGTTACCTCAATTGGAGgtagcat-cttaagaaaataaactttaatttcattcacataatagatagacaaaaacatttatagtaaaaaatacactcaac--caattcatttctcagttct

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|11689078|gb|BF596754.1|BF596754
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGNTGGAG                         CTATTGGAAGCAACAGCTATAGCAGTTCAACCACTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|7458573|gb|AW666023.1|AW666023
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGTTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|15285751|gb|BI469642.1|BI469642
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|19346261|gb|BM891141.1|BM891141
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACTTCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|151406577|gb|EV276392.1|EV276392
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|7326803|gb|AW620601.1|AW620601
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|9259983|gb|BE348130.1|BE348130
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|20449593|gb|BQ253717.1|BQ253717
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGTTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|31457075|gb|CD399103.1|CD399103
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|14205294|gb|BG838972.1|BG838972
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|27424288|gb|CA935808.1|CA935808
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|21602771|gb|BQ613102.1|BQ613102
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGTTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|11687896|gb|BF595572.1|BF595572
EST:     CAGATGGTATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAAGAGCAGT-CAGCCAGTGGCTC-AGTTTGGAG
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTA-GAGCAGTTCAGCCAGTG-CTCGAGTTTGGAG
EST: gi|18732701|gb|BM527196.1|BM527196
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGTTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|208313707|gb|GE113001.1|GE113001
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACTACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|22524291|gb|BU083102.1|BU083102
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGTTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|13480049|gb|BG509392.1|BG509392
EST:     GCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: GCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|20812788|gb|BQ297266.1|BQ297266
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGTTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|18732630|gb|BM527150.1|BM527150
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|22523414|gb|BU082225.1|BU082225
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|10234461|gb|BE803349.1|BE803349
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|22523608|gb|BU082419.1|BU082419
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
EST: gi|8401808|gb|BE057442.1|BE057442
EST:     CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGTTGGAG                         CTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA
genomic: CAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatt ... taatggccagCTATTGGAAGCAACAGCTAGAGCAGTTCAGCCAGTGCTCGAGTTTGGAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAATCATTGGTAATTGTGGCAAGTTCATCAGATTTACTACTGCGAGCCACAGATGGGATGCTGGTTGATGGAGAAGCTTGCACTTTACCACAGCTGGAGgtagtatatttcaacaagtgtattgttatattgtgtgtgatttctatgttccgtattatatttaattagtttatcaattggtgttcaataatctctgcgt

- - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA