Sequence
atgc intronic sequence ATGC exonic sequenceGATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGCTGGTGGCGGAAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaatttggattttgtatcttgtttagtttttcatttgttgaaatttaatgcttaaagtataaactaagaggcttccatcatag
Basic information
species | Glycine max |
transcript | GLYMA09G37720.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G37720.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G44900.1 (Arabidopsis thaliana), 5'ss of exon 3
GATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGCTGGTGGCGGAAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaatttggattttgtat------cttgtt-tagtttttcatttgttgaaatttaatgcttaaagtataaactaagaggcttccatcatag
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AATCAAAATTCTTGCTGGTTTGGCAAAGTCAATGAACAGACTTGTGGCTGAGGAAGCTGCTGGTGGACTATGGAATCTCTCTGTCGGAGAAGAGCATAAGgtaagtcctctaattatctataatattcttgttgttactcttgattttttaggactcattttttgttgttttctctattag-------------
upper sequence: GLYMA09G37720.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G60350.1 (Arabidopsis thaliana), 5'ss of exon 2
GATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGCTGGTGGCGGAAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaattt------ggattttgtat-cttgtttagtttttcatttgttgaaatttaatgcttaaagtataaactaagaggcttccatcatag
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GATCAGTGTTCTTGCTGATTTGGCAAAGTCTATGAATAGACTTGTGGCTGAAGAAGCTGCTGGTGGGCTATGGAATCTCTCTGTTGGAGAAGAGCATAAGgtacggtccccttgtaaagttttaaacacacattgaaccttttgctctttcactgacattgttgtttcttatttttattttttttctattag--
upper sequence: GLYMA09G37720.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv15s0021g01810.t01 (Vitis vinifera), 5'ss of exon 3
GATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGCTGGTGGCGGAAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaatttggattttgtatcttgtttagtttttcatttgttgaaatttaatgcttaaagtataaactaagaggcttccatcatag
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AATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGTCAGTTGCCGAAGAGGCTGCTGGAGGACTCTGGAACCTTTCTGTTGGAGAAGAGCACAAGgtttccattctgcacttcatttttttgtcattctatagctat-atactccaagtttctccatataataaatgagagtataatatcag
upper sequence: GLYMA09G37720.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ24586 (Selaginella moellendorffii), 5'ss of exon 2
GATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGCTGGTGGCGGAAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaatttggattttgtatcttgtttagtttttcatttgttgaaatttaatgcttaaagtataaactaagaggcttccatcatag
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AATCAACATCCTTGCAGGCTTGGCCAGATCTCCCAATCGTTGGGTTGCAGAAGAGGCAGCTGGAGGACTCTGGAACCTTTCAGTTGGCGAAGAGCACAAGgtttg--ttt---ttttctgatacttccagtatgactatggtcgagcttttcag---------------------------------
upper sequence: GLYMA09G37720.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ24022 (Selaginella moellendorffii), 5'ss of exon 2
GATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGCTGGTGGCGGAAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaatttggattttgtatcttgtttagtttttcatttgttgaaatttaatgcttaaagtataaactaagaggcttccatcatag
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AATCAACATCCTTGCAGGCCTAGCCAGATCTCCCAATCGTTGGGTTGCAGAAGAGGCAGCTGGAGGACTCTGGAACCTTTCAGTTGGCGAAGAGCACAAGgtttg--ttt---ttttctgatacttccagtatgactatagtcgagcttttcag---------------------------------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|209716858|gb|BW679610.1|BW679610EST: AAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAG GGTGCCATTGCTGAAGCTGGTGGAATACAAGCTTTAGTGGATCTTATATTC
genomic: AAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaattt ... tccatcatagGGTGCCATTGCTGAAGCTGGTGGAATACAAGCTTTAGTGGATCTTATATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGCTGGTGGCGGAAGAGGCTGCTGGAGGATTATGGAATCTCTCTGTTGGAGAAGAGCACAAGgttggaatttggattttgtatcttgtttagtttttcatttgttgaaatttaatgcttaaagtataaactaagaggcttccatcatag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA