Sequence
atgc intronic sequence ATGC exonic sequenceTGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaaataagatttcctttctttcttcaattgtatgatatttataaatatgtattttctaaggccaggaacgaaaatttgctgcgtattcttgattataca...
Basic information
species | Glycine max |
transcript | GLYMA08G15220.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g32730.1 (Oryza sativa), 5'ss of exon 4
TGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaaataagatttcctttctttcttcaattgtatgatatttataaatatgtattttctaaggccag-gaacgaaaatttgctgcgtattcttgattataca----
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AGCTGATGGGTTTGACATGTTCCCTACATTACTGGTAACTGATGGATCATGCATGATTGATCGTCGAATGGGAATTCATGGGCATCCACTTGAAATTCAGgtttttta-----cgatactcctgtcaattctgtgtcttttgtgaatggattttatcccattcaatcaaaagcatgtgtaccctcaaaagttaaacctatctttt
upper sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os04g33490.1 (Oryza sativa), 5'ss of exon 3
TGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaa-ataagatttcctttctttcttcaattgtatgat-atttataaatatgtattttctaaggccaggaacgaaaatttgctgcgtattcttgattataca-
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AGCTGATGGCTTCGACATGTTTCCCACCTTGCTTGTTACTGATGGCTCATGCATGATAGATCGTCGAATGGGAATCCATGGACACCCATTGGAAATTCAGgtagcatgaaaatttaacagagtgaaatatcataagttcatatagcaaagcaaactta-tatgatcggagttaggcagtaaatgc--attttgaattatggta
upper sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G040843_T01 (Zea mays), 5'ss of exon 4
TGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaaataagatttcctttctttcttcaattgtatgatatttataaatatgtattttctaa--ggccaggaacgaaaatttgctgcgtattcttgattataca
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AGCTGATGGTTTCGACATGTTCCCTACATTGCTCGTAACAGATGGTTCATGCATGATTGATCGTCGAATGGGAATCCATGGGCACCCACTTGAAATTCAGgttt-tctttttgctacacctagttatattttctgtttcatacgggtcttttttcccaagttgattttttgtgattgtttttgaggcaccttttaaaagaa-
upper sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0074g00720.t01 (Vitis vinifera), 5'ss of exon 5
TGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaaataagatttcctttctttcttcaattgtatgatattta----taaatatgtattttctaaggccaggaacgaaaatttgctgcgtattcttgattataca
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TGCTGATGGTTTTGATATGTTCCCAACTTTATTGGTCACAGATGGTTCTTGTATGATAGACCGCCGCATGGGGATTCATGGCCATCCATTGGAAATCCAGgtagatggtttttcaatttgttcttgagttgttttcttattactgttgaagggaaacattttctgtcttagaccttggaaccatta-atgttctt-actatt--
upper sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ21591 (Selaginella moellendorffii), 5'ss of exon 3
TGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaaataagatttcctttctttcttcaattgtatga-tatttataaatatgtattttctaaggccaggaacgaaaatttgctgcgtattcttgattataca
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TGCTGATGGCTTCGACATGTTTCCGACTTTGCTCGTGACTGATGGTTCGTGCATGATCGACAGAAGGATGGGAATTCATGGCCATCCCCTCGAAATACAGgtatgccatccttcttgaaagctttcactttcctgactagtttt-----tctatcttttgag---------------------------------------
upper sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ23966 (Selaginella moellendorffii), 5'ss of exon 3
TGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaaataagatttcctttctttcttcaattgtatga-tatttataaatatgtattttctaaggccaggaacgaaaatttgctgcgtattcttgattataca
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TGCTGATGGCTTCGACATGTTTCCGACTTTGCTCGTGACTGATGGTTCGTGCATGATCGATAGAAGGATGGGAATTCATGGCCATCCCCTCGAAATACAGgtatgccacccttcttgaaagctttcactttcctgactagtttt-----tctatcttttgag---------------------------------------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|298180283|gb|HO021894.1|HO021894EST: GGGCATCCTTTGGAGATTCAG GCACTGTTTTATTCTGCCTTACTTTGTGCACGTGAGATGCTTACTCCAGAG
genomic: GGGCATCCTTTGGAGATTCAGgtaaataaga ... cggtttctagGCACTGTTTTATTCTGCCTTACTTTGTGCACGTGAGATGCTTACTCCAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTGATGGCTTTGACATGTTCCCAACCTTATTAGTAACTGATGGTTCTTGCATGATAGATCGGAGGATGGGAATTCATGGGCATCCTTTGGAGATTCAGgtaaataagatttcctttctttcttcaattgtatgatatttataaatatgtattttctaaggccaggaacgaaaatttgctgcgtattcttgattataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT