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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCTGTTCCCTGAGATTATTAGATCTCTTTATGACCAGGATGTGCTGGCTGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaattctttttagacacttgtcctagtgtcctactcacaataaaactccaattgatagtttcctccttttggtgtctgtaatttttgctgtcactatacatgttatgctacttactgctgcttatttggaaccggtaca

Basic information

species Glycine max
transcript GLYMA18G47780.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47780.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os11g21990.1 (Oryza sativa), 5'ss of exon 7
AAGCTGTTCCCTGAGATTATTAGATCTCTTTATGACCAGGATGTGCTGGCTGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaattctttttaga--cacttgt-cctagtgtcctactcacaataaaactccaattgata--gtttcctccttttggtgtctgtaatttttgctgtcactatacatgttatgctacttactgctgcttatttggaaccggtaca
 |||| || ||||| || || ||| | || |||||||| ||||| || |||||||||||||| || | ||||||||| || ||  ||||| | |||||||||||       |   |||   ||||| |    |   | ||  |   |   |   |    || |||   ||||   || ||       | | ||| ||  |                                                 
-AGCTATTTCCTGAAATAATCAGAACGCTGTATGACCAAGATGTCCTAGCTGAAGATACCATCCTCCTTTGGTTCCGCAAGGGTTCAAACCCAAAGGGCAGgtaattgccttacgtaggtccacttttgtacaagatactgattttacctaggtttttgttaatacgatttcaagctgttaaacaacgcattttatgtgga------------------------------------------------

upper sequence: GLYMA18G47780.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv04s0023g00670.t01 (Vitis vinifera), 5'ss of exon 8
AAGCTGTTCCCTGAGATTATTAGATCTCTTTATGACCAGGATGTGCTGGCTGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaattctttttagacacttgtcctagtgtcctactcacaataaaactccaattgatagtttcctccttttggtgtctgtaatttttgctgtcactatacatgttatgctacttactgctgcttatttggaaccggtaca
 || |||| ||||| ||| | || ||||| |||||||| |||||||| |||||||| |||||||||   |||||||| |  ||||||||||| |||||| |||| | ||  |  |||         | |  |   | |  |||  |   | |   || || | || | | || ||      ||   || |     ||| |                                            
-AGTTGTTTCCTGAAATTGTGAGGTCTCTCTATGACCAAGATGTGCTTGCTGAAGACACCATTCTTGTCTGGTTCCGCAGGGGAACAAACTCTAAGGGCCGgtacgtatgttcattactttgcca-cttgatacacaagacacctttttaattatatcgagaattgctttctgttaactgatg-ggttctaataatcatttcc-----------------------------------------
















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|5126873|gb|AI748609.1|AI748609
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|10238380|gb|BE807268.1|BE807268
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|14990170|gb|BI315843.1|BI315843
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|151401127|gb|EV270941.1|EV270941
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|10846257|gb|BF071303.1|BF071303
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|26059859|gb|CA802773.1|CA802773
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|7145712|gb|AW507634.1|AW507634
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         G
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtaca-
EST: gi|7145712|gb|AW507634.1|AW507634
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         G
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtaca-
EST: gi|10236632|gb|BE805520.1|BE805520
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|19347148|gb|BM892028.1|BM892028
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTT
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTT
EST: gi|31456738|gb|CD398766.1|CD398766
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|27426423|gb|CA937943.1|CA937943
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|10234110|gb|BE802998.1|BE802998
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|21285387|gb|BQ473258.1|BQ473258
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|192327754|gb|FK022383.1|FK022383
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|192322177|gb|FK014073.1|FK014073
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|192322176|gb|FK014072.1|FK014072
EST:     TGAAGATACCATTTTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|18734887|gb|BM528442.1|BM528442
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|14125325|gb|BG789763.1|BG789763
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|6726368|gb|AW310722.1|AW310722
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|22927121|gb|BU544260.1|BU544260
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|16283103|gb|BI945373.1|BI945373
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|209707158|gb|BW656775.1|BW656775
EST:     GTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: GTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|19934532|gb|BQ079562.1|BQ079562
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|209724857|gb|BW672640.1|BW672640
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|120533169|gb|EH261302.1|EH261302
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|254321640|gb|GR824957.1|GR824957
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|15337352|gb|BI498008.1|BI498008
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|213601595|gb|DB980866.1|DB980866
EST:     TGAAGATACCAAACTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
EST: gi|18730241|gb|BM525765.1|BM525765
EST:     TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCA                         GGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG
genomic: TGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaatt ... aaccggtacaGGCAAACCTTTGTGAAGGCGCTGGAACCCTTTGTTAATTGGCTGGAGGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGCTGTTCCCTGAGATTATTAGATCTCTTTATGACCAGGATGTGCTGGCTGAAGATACCATTCTTCATTGGTTCCGAAAAGGAACAAACTCCAAGGGCAggtatgaattctttttagacacttgtcctagtgtcctactcacaataaaactccaattgatagtttcctccttttggtgtctgtaatttttgctgtcactatacatgttatgctacttactgctgcttatttggaaccggtaca

- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA