Sequence
atgc intronic sequence ATGC exonic sequenceTTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATGgtactggctgaaaatgtttaatggaaaaagtaaactagcaatgcttaagccatgcatatgctcacagaacttaatttcatcatgtcttgtag
Basic information
species | Glycine max |
transcript | GLYMA20G38810.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os01g61860.2 (Oryza sativa), 5'ss of exon 10
TTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATGgtactggctgaaaatgtttaatggaaaaag--taaactagcaatgcttaagcca-tgcatatgctcacagaacttaatttcatcatgtcttgtag------------------------
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TCCTTCGAGTTTGGGATGTGCTTCTGTTTGATGGAAATCGCGTGATGCTCTTTCGAACAGCTCTTGCCCTAATGGAGTTGTATGgtactgggtcgatcttttgcatttttgtcgctcaaacaattgtaacaaaaaaaagtttgtataatctcaggatatatattggtcactgcatgaatacttaccactggtgttggttacag
upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 10
lower sequence: AT2G39280.1 (Arabidopsis thaliana), 5'ss of exon 10
TTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATGgtact-ggctgaaaatgtttaatggaaaaagtaaactagcaatgcttaagccatgcatatgctc-acagaacttaatttcatcatgtcttgtag
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TTCTCAGAGTGTGGGATGTGCTTCTATTTGAAGGAAATCGTGTTATGCTTTTCAGAACAGCACTCGCATTGATGGAATTTTATGgtactcggttgaacctaagtatccatatgatttaagtaataat-------caatggaattgctctatactttttatgcttgccatatcag----
upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 10
lower sequence: AT3G55020.1 (Arabidopsis thaliana), 5'ss of exon 10
TTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATGgtact-ggctgaaaatgtttaatggaaaaagtaaactag-caatgcttaagccatgcatatgc--tcacagaac--ttaatttcatcatgtcttgtag---------------
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TTCTTAGAGTCTGGGATGTGCTTCTCTTTGAAGGAACTCGTGTTATGCTTTTCAGAACAGCACTCGCATTGATGGAACTATATGgtacttgattgaaactgctggtctttcaatttaagtgagatggtttgtggaccttctgaacgcagtggcgtcatcatcgagactgctctaacttatggtttaattcacttcag
upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv13s0067g03420.t01 (Vitis vinifera), 5'ss of exon 10
TTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATGgtactggctgaaa-atgtttaatggaaaaagta-----------aactagcaatgcttaag--ccatgca-----tatgctcacagaacttaatttcatc--atgtcttgtag
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TTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATGgtactgggtaaaagacatttaattaccgtgatattcttcaggataatcaacatggatttaatactatgtagggtatctttttacagaatgtaattttgttcagtctcttgtagMapped 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|120496536|gb|EH224703.1|EH224703EST: AAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATG GTCCTGCGTTGGTAACAACAAAGGATGCTGGAGATGCAGTTACTTTACTTC
genomic: AAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATGgtactggctg ... tgtcttgtagGTCCTGCGTTGGTAACAACAAAGGATGCTGGAGATGCAGTTACTTTACTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATGgtactggctgaaaatgtttaatggaaaaagtaaactagcaatgcttaagccatgcatatgctcacagaacttaatttcatcatgtcttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT