Sequence
atgc intronic sequence ATGC exonic sequenceGATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttttctaagctcttggtcatgagttttggctgtttagtttagaacttgattaagttacgtagactcctgtgaagcctgggagacagtatatga...
Basic information
species | Glycine max |
transcript | GLYMA09G39770.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 5'ss of exon 9
GATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttttctaagctcttggtcatgagttttggctgtttagtttagaacttgattaagttacgtagactcctgtgaagcctgggagacagtatatga------
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GATTTGGCTGTGGTGGTCCTGTTGATATTAATACCTCTTATATCACCTAATTCTTCAAAAGGAGGGgtaaccttttttgatgc-catgttctt----tttccctgtctgagttaggacatttttgcttgttggtgcaaaatgatcaacgtgttt-actacaaatgattcttc
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G058948_T01 (Zea mays), 5'ss of exon 8
GATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttttctaagctcttggtcatgagttttggctgtttagtttagaac---ttgattaa-gttacgta-gactcctgtgaagcctgggagac--agtatatga
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GATTTGGCTGTGGTGGTCCTGTTGATATTAATACCTCTCATATCACCTAATTCTTCAAAAGGAGGGgtaaccattttatc--tttatgctc-----ttttccttgtctgccctaggaccttttgcttattggtacacatagtttatgtgcttgatagccaactgagattatga
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 9
GATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttttctaagctcttggtcatgagttttggctgtttagtttagaac--ttgattaagttacgtagactcctgtgaagcctgggagacagtatatga-----
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GATTTGGCTGTGGTGGTTCTGTTGATATTAATACCTCTCATATCACCTAATTCTTCAAAAGGAGGGgtaaccattttgtc--tttatgctc-----ttttccttgtttgtcctaggaccttttgcttattggtacacatagtttatgtgcttgatagcccaaatgagattatg
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 12
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 8
GATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttttctaagctcttggtcatgagttttggctgtttagtttagaacttgattaa-gttacgtagactcctgtgaagcctgggagacagtatatga
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GATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGGgtaagcttagctttaacgtttcccttttttacttatatttcccttttgtgttgtgtttattgtgatgtaatggcagatggcgtaagttcaatatttcctc-
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 5'ss of exon 7
GATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttttctaagctcttggtcatgagttttggctgtttagtttagaacttgattaagttacgtagactcctgtgaagcctgggagacagtatatga-----
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GATTTGGCTGTTGTGGTTCTTCTAATACTCATACCTCTGATTTCACCAAATTCATCTAAAGGAGGGgtaaccttttc--aacaatttactcatct-ttttagtatggtagtgaatggattgaattcttattatttacaacagt--agccaatattgctctttttaatgtccMapped 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|16996864|gb|BM086236.1|BM086236EST: TCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG GTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCA
genomic: TCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttt ... atattttcagGTTGGTTTTCAAGCTATTGCTGAAGCACTTGGACTGGCTGCTGTTAAGGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATCTGGCTGTCGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGGgtaacgtttttctaagctcttggtcatgagttttggctgtttagtttagaacttgattaagttacgtagactcctgtgaagcctgggagacagtatatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG