Sequence
atgc intronic sequence ATGC exonic sequenceGTTGAATTCAAGAGAATTGTTTCACCATTAAAGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgtatgcatctttcctatctttattttatcagtgaaaagtaatatcatgtttccaacagtgggttcctattttgtatctagaaggacttattttctgtaac...
Basic information
species | Glycine max |
transcript | GLYMA08G19260.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g44394.1 (Oryza sativa), 5'ss of exon 6
GTTGAATTCAAGAGAATTGTTTCACCATTAAAGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgtatgcatctttcctatctttattttatcagtgaaaagtaatatcatgtttccaac-agtgggttcctattttgtatctagaaggact-tattttctgtaac
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GCTGAATTCAAGAGGATTGTGTCACCTTTAAAACTCCAGACAAGGTGTCTTGCTGCATTTCCTGATCAGCAAGGGTTTCTGgtaatgccttgttttctctttggtctaaatgtgggttccgtt-cgatgtttcttcctaataattttagctcccatgtacatcctaattgcaatctcagtag-
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os08g07960.2 (Oryza sativa), 5'ss of exon 7
GTTGAATTCAAGAGAATTGTTTCACCATTAAAGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgta-tgcatctttcctatctttattttatcagtgaaaagtaatatcatgtttccaacagtgg--gttcctattttgtatctagaaggacttattttctgtaac-
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ACGGAGTTCAAGCGCATCCAATCGCCACTCAAATACCAGACTAGGTGTCTTGCTGCATTCCCGGATCAACAAGGATTTTTGgtaatgcaacttttttttgtaaaaatttctagtctattctaa----atgcttaaatagataactattctagcaatgcattgttatgtacttatggtctttttct
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G058498_T01 (Zea mays), 5'ss of exon 7
GTTGAATTCAAGAGAATTGTTTCACCATTAAAGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgta-tgcatctttcctatctttattttatcagtgaaa--agtaatatcatgtttccaacagtgggttcctattttgtat-ctagaaggacttattttctgtaac
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ACGGAGTTCAAGCGAATCCAATCACCACTAAAATACCAGACACGGTGCCTTGCTGCATTCCCTGATCAACAAGGGTTTTTGgtaatactttattttggaatgtcctttactgccacattcattaaacctagcttcttctgtataagcctatttttagtgtgcttcacaaacagattattta----
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G180815_T01 (Zea mays), 5'ss of exon 6
GTTGAATTCAAGAGAATTGTTTCACCATTAAAGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgtatgcatctttcctatctttattttatcagtgaaaagtaatatcatgt--ttccaacagtgggttcctattttgtatctag-aaggacttattttctgtaac----
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GCTGAATTCAAGAGGATTACGTCACCTTTGAAGCTCCAGACAAGGTGTCTTGCTGCATTTCCTGATCAACAAGGTTTTTTGgtaa------tttctacatttgcttt-tctgtgtacatcaatgcaatatggttgagaaaatgaaagcacaagataaacaaaataaaagctagtgggctttgatcaaa
upper sequence: GLYMA08G19260.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv12s0055g00900.t01 (Vitis vinifera), 5'ss of exon 7
GTTGAATTCAAGAGAATTGTTTCACCATTAAAGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgtatgcatctttcc-tatctttattttatcagtgaaaagta---atatcatgtttccaa---cagtgggttcctattttgtatctagaaggacttattttctgtaac
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ACTGAGTTTAAGAGAATCACTTCACCATTGAAGTATCAGACAAGATGTGTTGCTGCCTTTCCGGATCAGCAAGGATTCTTGgtatgtgtttttttatttttttatttttttatttttttttatccatcttttgcttttatattttctgtatttctattt-atatcttgtcttactc-ttttct-----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|151399353|gb|EV269224.1|EV269224EST: AGTATCAAACAAGGTGCCTTGCTGCATTCCCTGACCAACAAG-TTTCTTG GTCGGATCA-TAGAAG-AAGGGTTGGGGTGCATCATTTGGATGATAGTCAG
genomic: AGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgtatgcatct ... ctttttgtagGTCGGATCAATAGAAGGAAGGGTTGGGGTGCATCATTTGGATGATAGTCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGAATTCAAGAGAATTGTTTCACCATTAAAGTATCAAACAAGGTGCCTTGCTGCATTCCCTGATCAACAAGGTTTCTTGgtatgcatctttcctatctttattttatcagtgaaaagtaatatcatgtttccaacagtgggttcctattttgtatctagaaggacttattttctgtaac
- - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaagtaa