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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGTCTGTTAATGGTGGCTTCAGGGGTTCTTCCAGTTCCGTCGATTGGCTTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactctaattaacctaccttttctttaattcacactctttaattctttttgcctcctactcaaaatcaaatcaaaggccttcttttctattagaa...

Basic information

species Glycine max
transcript GLYMA12G28730.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G28730.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 5'ss of exon 1
GAGGTCTGTTAATGGTGGCTTCAGGGGTTCTTCCAGTTCCGTCGATTGGCTTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGAC---------CACGAAGACGATAGAgtcag-tactctaattaa----cctaccttttctttaattcacactctttaattctttttgcctccta----ctcaaaatcaaatcaa-aggccttcttttctattagaa---------------------------------------------------------------------------
         |     |||||| | ||| || || ||||| || || ||||| || |||||||||||||||||||| |||||||||         || || || || ||||| || | ||  |  | |     ||   | ||  ||  || |   ||||    |  |   ||    ||    |||     | |||    | || ||   ||  |||   |                                                                           
---------TGCAAATGGCTTTAAGGGGTCATCAAGTTCAGTTGACTGGCTGGGGAGAGAGATGCTTGAGATGAGATTGAGAGACAGGGTGGACCAAGATGATGACAGAgtaagctgctgcatctgaaatttctgtatgtttgttggttgaacttcttgtggttctggagctatatatgggctcttggcccaattggcaagcatttggttgaatttataagcttggacagaaccatggaagctttctgaatttcggcaaacataatggtaattcttcctatataacccttgcag
















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|298183850|gb|HO029063.1|HO029063
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|213591928|gb|DB973451.1|DB973451
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|151408377|gb|EV278185.1|EV278185
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|6567403|gb|AW235014.1|AW235014
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|7925780|gb|AW831806.1|AW831806
EST:     GGCAGAGAGATGCTTGAGATGAGGGTTGAGAGACCNCGAAGAACGATAGA                         GATAGTGAGCCTGACATCATTGATG
genomic: GGCAGAGAGATGCTTGAGATGAGG-TTGAGAGACCACGAAGA-CGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATG
EST: gi|192295002|gb|FG986721.1|FG986721
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|7924283|gb|AW830309.1|AW830309
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|298193971|gb|HO040619.1|HO040619
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGATGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|193324085|gb|FK289551.1|FK289551
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGGTGTGGGTGCTGAGACAGGTCACGT
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGAT-GGTGTGGGTGCTGAGACAGGTCACGT
EST: gi|37995772|gb|CF807361.1|CF807361
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
EST: gi|207748699|gb|GD721306.1|GD721306
EST:     TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGA                         GATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC
genomic: TTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactc ... tgttttgcagGATAGTGAGCCTGACATCATTGATGGTGTGGGTGCTGAGACAGGTCACGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGGTCTGTTAATGGTGGCTTCAGGGGTTCTTCCAGTTCCGTCGATTGGCTTGGCAGAGAGATGCTTGAGATGAGGTTGAGAGACCACGAAGACGATAGAgtcagtactctaattaacctaccttttctttaattcacactctttaattctttttgcctcctactcaaaatcaaatcaaaggccttcttttctattagaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA