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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgatccacacaatattgcatcatttactctctgctttgattttgtttatttattatgctttagttatgttggtgtctgtgttgatgtgtttttgaag

Basic information

species Glycine max
transcript GLYMA09G12420.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G12420.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv11s0118g00680.t01 (Vitis vinifera), 5'ss of exon 2
ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgatccacac-aatattgcatcatttactctctgctttgattttgtttat----ttattatgctttagttatgttggtgtct---gtgttgatgtgtttttgaag--------
|| |||||||| |||||||||||||| ||||||||| ||||||| || ||     || ||||     |||||   | |    |||    |||   ||    || || | |     ||   || || | |   || ||  | |||  |  ||         
ACCGAGAAGGCATTTCTGAAGCAACCCAAAGTGTTTTTATGgta-acagaaaattacgaatacattctcattggtttttgttttttcccttggggatgacattgtttttcccctttttaattcgtttttaccgtttttctctgtgctgaaaacaatccag
















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|192295631|gb|FG990485.1|FG990485
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|208285308|gb|GE082972.1|GE082972
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|298193555|gb|HO040203.1|HO040203
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAGAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|213612020|gb|DB964856.1|DB964856
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|151409325|gb|EV279133.1|EV279133
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|298192237|gb|HO036319.1|HO036319
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|192329280|gb|FK020199.1|FK020199
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|192323316|gb|FK017422.1|FK017422
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTAGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|151410570|gb|EV280385.1|EV280385
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|192334757|gb|FK025262.1|FK025262
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAAAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|7145646|gb|AW507568.1|AW507568
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|38192824|gb|CF922030.1|CF922030
EST:     CCAAAAGTGTTTCTATG                         CTTTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: CCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|192327595|gb|FK020642.1|FK020642
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|38193079|gb|CF922285.1|CF922285
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|298185805|gb|HO030966.1|HO030966
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|151412049|gb|EV281861.1|EV281861
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|213610749|gb|DB963135.1|DB963135
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|192334069|gb|FK026226.1|FK026226
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|18040050|gb|BM308344.1|BM308344
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGGTGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGCTT
EST: gi|193375019|gb|FK339033.1|FK339033
EST:     ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATG                         CTCTAAGAAAGGGTGGGGAAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGC
genomic: ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgat ... gtttttgaagCTCTAAGAAAGG-TGGG-AAGGGAAAGAGGCCTGGGAAAGGTGGGAATCGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAGAGAAGGCTTTTCTGAAGCAACCAAAAGTGTTTCTATGgtatactgatccacacaatattgcatcatttactctctgctttgattttgtttatttattatgctttagttatgttggtgtctgtgttgatgtgtttttgaag

- - - - - - -  CTGAAG
- - - - - - - - TGAAGC
- - - - - - - - - AAGCAA