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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGAGCTGTTGACAAGAGCTATCATTTAAAGATGAAAGCATCTAGGTTCATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttgattcacctaaatgtttcaatacttagtttaaactcgaggttttgaatttgggttctctttgttacctgttaaattaaatgttaaccctttcataatag

Basic information

species Glycine max
transcript GLYMA01G29420.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G29420.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv06s0004g06870.t01 (Vitis vinifera), 5'ss of exon 7
AGAGAGCTGTTGACAAGAGCTATCATTTAAAGATGAAAGCATCTAGGTTCATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttgattcacctaaatgtttcaatacttagtttaaactcgaggttttgaatttgggttctc-tttgttacctgttaaattaaatgttaaccctttcataatag
| ||||| || ||||| |  ||||| || || |||||  | || ||||| || |||||||||||||  |||||||| ||||||||||||||  |||| ||||   || | ||   |  | | |||||| |    || |  | | |    | | |||||    | |   || | |    ||  |||  ||  |      ||| | ||||
AAAGAGCAGTGGACAAAAATTATCACTTGAAAATGAAGTCGTCAAGGTTTATCTTCAGTGAAATAAATCAAAAGTTCCCCATCATGCCATTTACAGCCAGgtatactggctttttc--actatttcaaaa---ggtctccatttgt--ctctcaatttaaactattgcttttcagaccttgcattgtatcattctgtcttccttatag

upper sequence: GLYMA01G29420.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv08s0217g00020.t01 (Vitis vinifera), 5'ss of exon 6
AGAGAGCTGTTGACAAGAGCTATCATTTAAAGATGAAAGCATCTAGGTTCATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttgattcacctaaatgtttcaatacttagtttaaactcgaggttttgaatttgggttctctttgttacctgttaaattaaatgttaaccctttcataatag
| ||||| || ||||||||||||||||| ||||||||||| ||||| |||||||||||||| || |||||||||||||||||||||||||| |||||||||||   ||  ||||    ||| ||      ||| ||          | | ||     | |        |   || |||    ||           | ||||| ||||
AAAGAGCAGTCGACAAGAGCTATCATTTGAAGATGAAAGCTTCTAGATTCATTTTCAGTGAGATTAGCCAAAAGTTTCCCATCATGCCATTTTCAGCAAGgtttatttctttca---gaatattggttctcttggt----------gatcttttgccttgccctgtagtaacacttgtggggtt----------tccttcatgatag

upper sequence: GLYMA01G29420.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ35350 (Selaginella moellendorffii), 5'ss of exon 6
AGAGAGCTGTTGACAAGAGCTATCATTTAAAGATGAAAGCATCTAGGTTCATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttgattcacctaaa-tgtttcaatacttagtttaaactcgaggttttgaatttgggttctctttgttacctgttaaattaaatgttaaccctttcataatag
     || || ||||||||||||||||| |||||||| || || ||||| || ||||||||||||||||| ||||| ||  ||||||| ||  | || |||  || ||  |||    |   | |     |  | || | ||| | |   |||  |    |                                                
----GGCCGTGGACAAGAGCTATCATTTGAAGATGAAGGCCTCGAGGTTTATATTCAGTGAAATAAGCCAGAAGTTCCCGCTCATGCCCTTTACCGCCAGGCAAgttttcttctgtaattctatccttctggtgagctcaaatttgcattttccagggag------------------------------------------------

upper sequence: GLYMA01G29420.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ10608 (Selaginella moellendorffii), 5'ss of exon 6
AGAGAGCTGTTGACAAGAGCTATCATTTAAAGATGAAAGCATCTAGGTTCATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttgattcacctaaatgtttcaatacttagtttaaactcgaggttttgaatttgggttctctttgttacctgttaaattaaatgttaaccctttcataatag
     || || ||||||||||||||||| |||||||| || || ||||| || ||||||||||||||||| ||||||||  ||||||| ||  | || |||  || |   ||  | |   |  ||| || |||        |  | |   |  ||||||  || ||   |                                     
----GGCCGTGGACAAGAGCTATCATTTGAAGATGAAGGCCTCGAGGTTTATATTCAGTGAAATAAGCCAGAAGTTTCCGCTCATGCCCTTTACCGCCAGGCAAgtt--gttttcttctgtaattctatcctt--------ccggtgagctcaaatttgcattttccagggag----------------------------------

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|208225805|gb|GE024474.1|GE024474
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCG
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCG
EST: gi|208304694|gb|GE103543.1|GE103543
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|193329194|gb|FK296488.1|FK296488
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAAGAAAAGAGCTCGGTTAGGTTTAG
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGA-GAAAAGAGCTCGGTTAGGTTTAG
EST: gi|207755316|gb|GD729911.1|GD729911
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGCTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|151404678|gb|EV274492.1|EV274492
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208249339|gb|GE046796.1|GE046796
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208076436|gb|GD874343.1|GD874343
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCATG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAA
EST: gi|193349601|gb|FK316157.1|FK316157
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAAGAGCTCGGTTAGG
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAA-GAGCTCGGTTAGG
EST: gi|193308659|gb|FK277034.1|FK277034
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAG
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAG
EST: gi|193470993|gb|FK436948.1|FK436948
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208114516|gb|GD912127.1|GD912127
EST:     CCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: CCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208162457|gb|GD962278.1|GD962278
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208161594|gb|GD961374.1|GD961374
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208146105|gb|GD944808.1|GD944808
EST:     TGAAATAAGCCAATAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTTGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: TGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208072328|gb|GD870260.1|GD870260
EST:     CAAAAGTTTCCCATCTATGCCATTCTCTAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATC
genomic: CAAAAGTTTCCCATC-ATGCCATTCTC-AGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATC
EST: gi|193316895|gb|FK281113.1|FK281113
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAAGCTCGGTTAGGTTTAG
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGA-GCTCGGTTAGGTTTAG
EST: gi|208335639|gb|GE137602.1|GE137602
EST:     CCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: CCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|208170222|gb|GD966573.1|GD966573
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCACCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|207799666|gb|GD770541.1|GD770541
EST:     AGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: AGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|193455990|gb|FK418396.1|FK418396
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|193423044|gb|FK388865.1|FK388865
EST:     ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: ATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
EST: gi|193381878|gb|FK348435.1|FK348435
EST:     TGCCATTCTCAGCAAG                         GGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA
genomic: TGCCATTCTCAGCAAGgttagcttga ... ttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGAGCTGTTGACAAGAGCTATCATTTAAAGATGAAAGCATCTAGGTTCATTTTCAGTGAAATAAGCCAAAAGTTTCCCATCATGCCATTCTCAGCAAGgttagcttgattcacctaaatgtttcaatacttagtttaaactcgaggttttgaatttgggttctctttgttacctgttaaattaaatgttaaccctttcataatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG