Sequence
atgc intronic sequence ATGC exonic sequenceCTGCTAACTTTGTGAGACCAGATACCAGCAAAGGTGGCAGTATGGATCCAGGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAGgtaacatatcttccgaaatttgcctatataccttgtaaatccctgccttgttcctaggcacttctatgtgattcaccattaaattatgatttttggttttgtag
Basic information
species | Glycine max |
transcript | GLYMA20G01680.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os08g33200.1 (Oryza sativa), 5'ss of exon 2
CTGCTAACTTTGTGAGACCAGATACCAGCAAAGGTGGCAGTATGGATCCAGGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAGgtaacatatcttccgaaatttgcctatataccttgtaaatccctgccttgttcctaggcacttctatgtgattcaccattaaattatgatttttggttttgtag
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CTGCTGGCTATGTGAGACCAGATACCAAGAAAGGTGGCAGCATGGATCCTACTGATTATGTGAAAGTTAAATGTTTAGCATCAGGGGATCCAAGTGATAGgta-----tgttcttagctttgt-tgtttgactggt-----ttttacatgtttgtactttccatcatatgaa-----actgatgggtgttcctt--ttatgcag
upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G066876_T01 (Zea mays), 5'ss of exon 2
CTGCTAACTTTGTGAGACCAGATACCAGCAAAGGTGGCAGTATGGATCCAGGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAGgtaacatatcttccgaaatttgcctatataccttgtaaatccctgccttgttcctaggcacttctatgtgattcaccattaaattatgatttttggttttgtag
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CTGCTAACTATGTGAAACCCGATACCAAGAAAGGTGGCAGCATGGATCCTAGTGATTACGTGAAGATTAAATGCATAGCATCTGGGAAGCCAACTGATAGgtt-tgtgtttttc----cttgcttgtgcatctgtttactcataattttatcttctgatcatcatatggtaccaacaaacgaattattggatgcag--------
upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 2
CTGCTAACTTTGTGAGACCAGATACCAGCAAAGGTGGCAGTATGGATCCAGGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAGgtaacatatcttccgaaatttgcctatataccttgtaaatccctgcct--tgttcctaggcacttctatg---tgattcaccattaaattatgatttttggttttgtag--------------
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CTGCAAATTTTGTGAAACCAGATACTAGTAGAGGAGGCAGTATGGATCCAGGAGCATATGTAAAGGTTAAGTGTATAGCATCAGGAAGTCCACATGAGAGgtatgatatgcccgaaatatttaatagactccatatatattactgcttcatgtctttgaacagtttagtaattttttttgtctttttttttttattttcatttgtggagtgtattgtgtgcag
upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S36_196V6.1 (Physcomitrella patens), 5'ss of exon 5
CTGCTAACTTTGTGAGACCAGATACCAGCAAAGGTGGCAGTATGGATCCAGGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAGgtaacatatcttccgaaatttgcctatataccttgtaaatccctgccttgttcctaggcacttctatgtgattcaccattaaattatgatttttggttttgtag
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CTGCCAGTCTTGTTAAACCGGATACAAGTAAAGGAGGTGGAATGGATCCAGGTGGCTATGTGAAGGTCAAATGTATAGCCTCTGGACGGCGCGAAGATAGgtaaaaagatcgtttttacatgtttttg-atataaacaaccctcacttgggactagcacacggtcactttatatttgagtattcctgaatttcaaggatca---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|193554847|gb|FK511792.1|FK511792EST: GGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAG CACCCTTGTCAAAGG
genomic: GGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAGgtaacatatc ... ggttttgtagCACCCTTGTCAAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGCTAACTTTGTGAGACCAGATACCAGCAAAGGTGGCAGTATGGATCCAGGTGATTATGTGAAGGTCAAATGTGTGGCATCTGGAAGCCCAAGTGAGAGgtaacatatcttccgaaatttgcctatataccttgtaaatccctgccttgttcctaggcacttctatgtgattcaccattaaattatgatttttggttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG