Sequence
atgc intronic sequence ATGC exonic sequenceGGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttttaaaagtttaaatatgcag
Basic information
species | Glycine max |
transcript | GLYMA16G33570.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G33570.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g42540.1 (Oryza sativa), 5'ss of exon 3
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttttaaaagtttaaatatgcag
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---------------------------------------ATGCAGGAGGTTGCTGGTGAACGGGGAGGTTACCTTCATGGGCGAGGAGgtat---ttcatgctctctgtttttttgtatgaat-ctgtgtaggttcctcattaactttgttttatgtgtcgatgttttttcag--------------------
upper sequence: GLYMA16G33570.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G146786_T02 (Zea mays), 5'ss of exon 3
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgca-cttcccgcctcacatgcttctttagtttacttcttcccttttaaaagtttaaatatgcag
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GGATTTTGGTTCTCT--ACTCGGTGGTTGATACCAACAGATGCAAGAGGTTGCTGGTGATAGGGGAGGCTACCTTCACGGACGAGGAGgtatttca-tgcttcttttataggaagacccctgtaaagtttgtagctcccttgttaaccttgttcttcag-----------------------------------
upper sequence: GLYMA16G33570.2 (Glycine max), 5'ss of exon 3
lower sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttt-taaaagtttaaatatgcag
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---------------------------------------ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttt-------tttgtttttcgttcttctt-ttgtagttgtgtcatggccataattcttgagtttcttgtag-------------
upper sequence: GLYMA16G33570.2 (Glycine max), 5'ss of exon 3
lower sequence: AT1G73350.1 (Arabidopsis thaliana), 5'ss of exon 3
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttc--ccttttaaaagtttaaatatgcag
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---------------------------------------ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttt-------tttgtttttcgttcttctt-ttgtagttgtgtcatggccataattcttgagtttcttgtagctttag--------
upper sequence: GLYMA16G33570.2 (Glycine max), 5'ss of exon 3
lower sequence: AT1G73350.3 (Arabidopsis thaliana), 5'ss of exon 3
GGATATTGGCTTC-CTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttt-taaaagtttaaatatgcag
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GGATAACGGCCCCGCCACATTTTCTGGTTATTGCATATAGATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttt-------tttgtttttcgttcttctt-ttgtagttgtgtcatggccataattcttgagtttcttgtag-------------
upper sequence: GLYMA16G33570.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0039g00280.t01 (Vitis vinifera), 5'ss of exon 3
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctg-----tgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttttaaaagtttaaatatgcag
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---------------------------------------ATGCAAGAGGTTGCAGGGGAACGTGGAGGTTACCTTCATGGACGAGGCGgtactgtctctgcctctctctggctgggtttttggttcctttttccttcaatatatacctttagtttttttttgtttttttttgaattttggttaagtttgaatatgcagMapped 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|192298082|gb|FG991362.1|FG991362EST: GATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCG CCTTGGACAGTGATGATCTACTTTATCTCAAGGAGCAAATGGAAGCCGAGG
genomic: GATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctct ... aaatatgcagCCTTGGACAGTGATGATCTACTTTATCTCAAGGAGCAAATGGAAGCCGAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttttaaaagtttaaatatgcag
- - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA