Sequence
atgc intronic sequence ATGC exonic sequenceCCTTTAATTTATTTATTTTTCTCTGTTGGTTTTCTGTTAGATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAGgttagactttctctattttcttttagattttaattttatgaatattggttttgatttgaaaataaaaataaaaataaaaattgcatcatgtgattataga...
Basic information
species | Glycine max |
transcript | GLYMA20G29590.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G29590.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os06g03800.1 (Oryza sativa), 5'ss of exon 2
CCTTTAATTTATTTATTTTTCTCTGTTGGTTTTCTGTTAGATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAGgttag---actttctctattttcttttagattttaattttatgaatattggttttgatttgaaaataaaaataaaaataaaa-attgcatcatgtgatta-taga------------------------------------------------------------------------
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----------------------------------------ATTGCTGCATTGCTGCTGGAGAATGGAGCAGATGTGAATGCGAGGAACATCTATGGACAGgtgagcgaactcaaactgtacaagcttagctctgcacaagctaagccaagccatcggtttttgactcgaattaatatcgagccgtttgatcgatcgcccaaccgaccaaccagctagtccatgtttctgacctggatcttgaattctgaatgcacatggggattgattgaactgaag
upper sequence: GLYMA20G29590.2 (Glycine max), 5'ss of exon 1
lower sequence: AT5G07270.1 (Arabidopsis thaliana), 5'ss of exon 2
CCTTTAATTTATTTATTTTTCTCTGTTGGTTTTCTGTTAGATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAGgt--tagactt--tctctattttcttttagattttaattttatgaatattggttttgatttgaaaataaaaataaaaataaaaattgcatcatgtgattataga
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----------------------------------------ATCGTCGGATTGTTGCTCGAGAACGGAGCTGATGTGAATTCCAGAAATTATTGCGGCCAGgtaataaatctagtttcagttttttttctcaattggatttga--aattgttgagcggattctgagctgattcattgattcaagttcgattcttttgattcga--
upper sequence: GLYMA20G29590.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv16s0100g00690.t01 (Vitis vinifera), 5'ss of exon 3
CCTTTAATTTATTTATTTTTCTCTGTTGGTTTTCTGTTAGATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAGgttagactttctctattttcttttagattttaattttatgaatattggttttgatttgaaaataaaaataaaaataaaaattgcatcatgtgattataga------
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----------------------------------------ATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAGgtatgattttcaccctttt--tgtgggtgtttttctgatctgggtttgctttaccgtgg---tcgattttgatggcaaaatgacatgatgtg-tttcagtttcgatMapped 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|7925018|gb|AW831044.1|AW831044EST: TGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG ACCGCATTGATGCAAGCTTGTAGATATGGGCATTGGGAGGTTGCACAGACA
genomic: TGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAGgttagacttt ... tgatttgaagACCGCATTGATGCAAGCTTGTAGATATGGGCATTGGGAGGTTGCACAGACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTTTAATTTATTTATTTTTCTCTGTTGGTTTTCTGTTAGATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAGgttagactttctctattttcttttagattttaattttatgaatattggttttgatttgaaaataaaaataaaaataaaaattgcatcatgtgattataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataaa