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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatacatcacttatagaaatgtaattgtgcactaaatcaaataactatattcttttttactgtctgttgggggtgatatcttatcctcttgtatt...

Basic information

species Glycine max
transcript GLYMA19G17920.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G17920.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv08s0040g00410.t01 (Vitis vinifera), 5'ss of exon 7
AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagt-atacatcacttatagaaatgta-attgtgcac---taaatcaaataactatattcttttttactgtctgttgggggtgatatcttatcctcttgtatt
|| || || |||||||||||||| || ||||| |||||||||||||||||||| | |  | | || |   | |||   || |  |    |||  |  |     | |    |     |  ||           |   | |   | |       
AGGTACTTTGGTGCTGCAATTGGAAAAGGCAGACAGGCTGCTAAAACgtaagttacagtttatttgtttgactgtgtgttatatatggataatcctgaaggtaaaaaagatccgcccattcccccaacccccaacacatgcacaccc-----

upper sequence: GLYMA19G17920.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ26434 (Selaginella moellendorffii), 5'ss of exon 8
AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatacatcacttatagaaatgtaattgtgcactaaatcaaataactatattcttttttactgtctgttgggggtgatatcttatcctcttgtatt
 | ||||||||||| || |||||||||||  |||| ||||| |||||||||| | | ||  || | | ||      | |       |   || |     | ||   | | || |                                 
CGCTATTTCGGTGCAGCGATTGGCAAGGGGCGGCAAGCTGCGAAAACgtaagaa-agatttctcaaacaagcaccgt-gactgtcgatctaactttgcttgttgcatctcacag---------------------------------
















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|31472889|gb|CD414917.1|CD414917
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|151409523|gb|EV279331.1|EV279331
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|151406675|gb|EV276490.1|EV276490
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|151405011|gb|EV274825.1|EV274825
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|192334683|gb|FK025888.1|FK025888
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|15203950|gb|BI426727.1|BI426727
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|151411404|gb|EV281215.1|EV281215
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|192334682|gb|FK025887.1|FK025887
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|151409103|gb|EV278911.1|EV278911
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|192324735|gb|FK018771.1|FK018771
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|192325082|gb|FK017498.1|FK017498
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|8403145|gb|BE058779.1|BE058779
EST:     GGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: GGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|192325978|gb|FK016655.1|FK016655
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|16344394|gb|BI969989.1|BI969989
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|7685409|gb|AW756057.1|AW756057
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|16344458|gb|BI970053.1|BI970053
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|254321256|gb|GR827705.1|GR827705
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|193624088|gb|FK573912.1|FK573912
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|207747548|gb|GD720253.1|GD720253
EST:     TATAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: TATAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|254321257|gb|GR827706.1|GR827706
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
EST: gi|26047788|gb|CA784463.1|CA784463
EST:     AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC                         AGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT
genomic: AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatac ... ttattcgcagAGAGATTGAAAAGTTAAAGCTTGCTGATATGACATGTCGACAAGGGCTTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACgtaagtatacatcacttatagaaatgtaattgtgcactaaatcaaataactatattcttttttactgtctgttgggggtgatatcttatcctcttgtatt

- - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggggtg