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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCCATGGAAGCTTTTCAGATAGCCCTTTGCTGAATAGCCTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcatactggcttttttgtttgttcatttgtcattgaaaaaaaatcttttgttgattcaattatttttatagtgtgtttggaagcccgtttgaga...

Basic information

species Glycine max
transcript GLYMA02G39230.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G39230.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0004g06720.t01 (Vitis vinifera), 5'ss of exon 3
TGGCCATGGAAGCTTTTCAGATAGCCCTTTGCTGAATAGCCTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcatactggcttttttgtttgttcatttgtcattgaaaaaaaatcttttgt---tgattcaattatttttatagtgtgtttggaagcccgtttgaga
||| |||||||||||||| |||| |||| ||||||||||  ||||||| ||| |||| |||||  |||| ||||| || ||| ||||||||| || |||         |    ||  |||||||   |    |   | || |||  |   ||  ||||||||   |  |   || |                 
TGGACATGGAAGCTTTTCTGATAACCCTATGCTGAATAGTATGGTGGGGCACCTCTTACATTCAACAATCCTTGTTCCCTACAATGGATGgt-aggtcactgacaaactcaaattgtttcattttcaagacgacccagatgtttgatgtatgtctcaattatcaatgaatgatgatacag-------------
















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|151393687|gb|EV263562.1|EV263562
EST:     CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATG                         GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
genomic: CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcat ... gattttgcagGAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
EST: gi|151407473|gb|EV277288.1|EV277288
EST:     CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATG                         GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
genomic: CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcat ... gattttgcagGAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
EST: gi|298197456|gb|HO044935.1|HO044935
EST:     CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATG                         GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGA
genomic: CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcat ... gattttgcagGAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGA
EST: gi|192305128|gb|FG994678.1|FG994678
EST:     CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATG                         GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
genomic: CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcat ... gattttgcagGAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
EST: gi|151394272|gb|EV264143.1|EV264143
EST:     CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATG                         GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
genomic: CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcat ... gattttgcagGAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
EST: gi|298189379|gb|HO037782.1|HO037782
EST:     CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATG                         GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
genomic: CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcat ... gattttgcagGAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
EST: gi|213600296|gb|DB955878.1|DB955878
EST:     CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATG                         GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA
genomic: CTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcat ... gattttgcagGAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCCATGGAAGCTTTTCAGATAGCCCTTTGCTGAATAGCCTGGTGGGACACATCTTGCATTCCTCAATTCTTGTGCCATACCATGGATGgttagttcatactggcttttttgtttgttcatttgtcattgaaaaaaaatcttttgttgattcaattatttttatagtgtgtttggaagcccgtttgaga

- - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaaaa