Sequence
atgc intronic sequence ATGC exonic sequenceCCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtcccttatccgtatttaataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgctgtaactgcttaggaata...
Basic information
species | Glycine max |
transcript | GLYMA03G32710.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32710.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os04g42840.1 (Oryza sativa), 5'ss of exon 1
CCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtccc-ttatccgta-tttaataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgctgtaactgcttaggaata
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CCACCTGAACGCGCTCGTCCCGGCCGCCGTCGAGCGCCTCGGGGACGGCAAGCAGCCCGTCCGCGAGGCCGCCCGGCAGCTCCTCATCACCCTCATGGAGgtccgctcctgttgcttgcaatctcattggttgtttttttttcgttctgtttgggagctggatggagctgcaaatacgagttagtgtta--gataaggagca
upper sequence: GLYMA03G32710.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os02g40430.1 (Oryza sativa), 5'ss of exon 1
CCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtcccttatccgtatttaataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgctgtaactgcttaggaata-
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CCACCTCAACGCCCTCGTGCCCGCCGCCGTCGAGCGGCTGGGCGACGGCAAGCAGCCCGTCCGAGACGCCGCCAGGCAGCTGCTTGTCACCCTCATGGAGgt-ctggttctcttcgctgtgtcgccttctgctagcgacatcgtttgctcttaccggtttaggtttggggaaaatgcgggttcgattatgtgtatatttag
upper sequence: GLYMA03G32710.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G018800_T01 (Zea mays), 5'ss of exon 1
CCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtcccttatccgtatttaataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgct-gtaactgcttaggaata
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CCACCTCAACGCCCTCGTCCCCGCCGCCGTCGAGCGCCTCGACGACGGCAAGCAACCCGTCCGCGACGCCGCGCGACAGCTCCTCATCACGCTCATGGAGgtgagctcctttcgtcggcgctctcagtggcctgtcgtctctcctgggaaatgcatgtagctggggaggtagattaagttgcgagttcgaactaagagat-
upper sequence: GLYMA03G32710.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G052078_T01 (Zea mays), 5'ss of exon 1
CCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtcccttat----ccgtatttaataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgctgtaactgc-ttaggaata
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CCATCTCAACGCCCTCGTCCCGGCCGCCGTCGAACGCCTCGGCGACGGCAAGCAGCCCGTTCGCGACGCCGCGCGGCAGCTCCTCATTACTCTGATGGAGgtgagcttcctttcgtcgccgttctgagcggcctgtcgtctctccc--ccggaaatgcatgtagctggggagctaggttaagtta-tgaatttgtgctaagag--
upper sequence: GLYMA03G32710.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G096905_T01 (Zea mays), 5'ss of exon 1
CCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgt-actgtcccttatccgtatttaataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgctgtaactgcttaggaata
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--------------------CGGCCGCCGTCGAACGCCTCGGCGACGGCAAGCAGCCCGTTCACGACGCCGCACGACAGCTCCTCATTACTCTGATGGAGGTGAGCTTCCTTTCGTCGTCgttctaagcggcctgtcgtctctccccggaaatgcatgtag----------------------------------------
upper sequence: GLYMA03G32710.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv07s0005g05010.t01 (Vitis vinifera), 5'ss of exon 1
CCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtcccttatccgtatt-taataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgctgtaactgcttaggaata
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GCATTTCAATGCCCTTGTTCCTGCTGTCGTTGAGCGCCTCGGCGACGGTAAGCAGCCAGTCCGCGATGCAGCGCGCCGGCTCTTGCTCACTCTCATGGAGgtgattcttatctctggaactgtctttgttccgttttgatctgattttggtttgaat-ttggtgattcttagtgatgttttttcccttcaattttgtgtttMapped 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|15662263|gb|BI699634.1|BI699634EST: AGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAG GTTTCTTCTCCTACAATAATTGTTGAAAGAGCAGGGTCCTTTGCTTGGGCA
genomic: AGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtccc ... ttatatgcagGTTTCTTCTCCTACAATAATTGTTGAAAGAGCAGGGTCCTTTGCTTGGGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCACTTCAACGCCCTCCTCCCCGCCGTCGTCGACCGCCTCGGCGACGCCAAGCAGCCCGTCCGCGACGCCGCCCGTCGGCTCCTGCTCACTCTCATGGAGgtactgtcccttatccgtatttaataactcgatagtgatagtaatcgagtgtggttcttactaactggtagcggtagggtgctgtaactgcttaggaata
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