Sequence
atgc intronic sequence ATGC exonic sequenceTGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaaattgttgattgaagttattaacatttactttctcctagtggttgacttttataatattcttgtcttttcatcattttag
Basic information
species | Glycine max |
transcript | GLYMA18G51810.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 5'ss of exon 11
TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaat----tga--ggcctggaaattgttgattgaagtta--ttaacatttactttc---tcctagtg-gttgacttttataatattcttgtcttttca-tcattttag
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TGGCATAAACGATTCCCCTAATGGTGATGGAATACAAGCAATTGGTAGAAGTTCACACAAAATGATTGAGGCGGTGATGCAATCAGCTTCAAAGGGCAAGgtagcacattctggttgtcctggaagttaatactcttgcttatgtctacgctcaggctcacatttcagcatggaaattcatgtcatattttaaagtgagtacttatttcag
upper sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 5'ss of exon 11
TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaa-attgttgattgaagttattaacatttactttctcctagtggttgacttttataatattcttgtcttttcatcattttag
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TGGTTTGACTGATGCCCATAATGGTGATGGAATTCAAACGATTGCTAGAAGTTCACATAAAATGATTGAGGCAGTGATGCAGTCGGCCTCAAAAGGCAAGgtaccactt---cctggttcactaggaattaaagct--tcatgcagacattctagtactg--tcattcctgaaacaaagt-atatgttcag--------
upper sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G059225_T02 (Zea mays), 5'ss of exon 11
TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaaattgttgattgaagttattaacatttactttctcctagtggttgacttttataatattcttgtcttttcatcattttag-------
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TGGAATGAATGATTCTCCTAACGGTGATGGAATACAAACAATAGGTAGAAGTTCACATAAGATGATTGAGGAAGCAATGCAGTCAGCTTCAAAGGGCAAGgt--aaccagatactggaacttattttctt---ttttcccccttgaactatgcaggagagctgcacatcatttcattaaggtagggggaaaaaggagtacacgag
upper sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 11
lower sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 11
TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaaattgttgattgaagttattaacatttactttctcctagtggttgacttttataatattcttgtcttttcatcattttag
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TGGTTCTAATGGATCACCAAATGGAGATGGCATACAAGCAATCGGTAGAAGCTCTCACAAAATGATAGACGCCGTAATGCAATCTGCTGCAAGAGGAAAGgttga-tcaacgtctttaacatat-gattga-------------tacatcttccagagagt--actattaacatttcttggtgctttcag--------
upper sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv01s0150g00030.t01 (Vitis vinifera), 5'ss of exon 11
TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaaattgttgattgaagttattaacatttactttctcctagtggttga---------cttttataatattcttgtcttttcatcattttag--------------------------------------------------
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TGGTTCTAATGGGTCTCCTAATGGAGACGGTATACAAGCCATTGGCAGAAGCTCACATAAAATGATAGAGGCTGTGATGCAATCTGCAGCCAAGGGAAAGgtctgaa-gaagcttataagttattaaggaacttcttttatagatacttatcaaaaaaaaaaaaaaggaacttcttttatagatcctctttattttcttgatgttccttgtatttctagttgttttttgtttccgtgtctgaataacaatatttcag
upper sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S177_40V6.1 (Physcomitrella patens), 5'ss of exon 11
---TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgt-----tgaattgaggcctggaaattgttgattg-aagttattaacatt-tactttctccta-gtggttgacttttataatattcttgtcttttcatcattttag---------------
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GATTGATTTTGACAGCTCTTC---TGGAGATGGTATTCAAGGTGTTGGCCGCAGTTCACATAAGATGATTGAGGCAGTCATGCAATCGACCCCAAAAGGGCAGgtatttctctagtcagcctaatgaaacactgtgaacaggttactagtggtgcagtttgaactatgcgttcttcaacagtagtgttgaagcgtaataatcattttgggattcctcctcgcagMapped 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|21637852|gb|BM108007.1|BM108007EST: GTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAG GTTCAAACTATTCGACAAGGTTATCTCTCAAAGCGTTCCTCAAACTTAAGG
genomic: GTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattga ... atcattttagGTTCAAACTATTCGACAAGGTTATCTCTCAAAGCGTTCCTCAAACTTAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTTCTAATGGGTCTCCTAATGGAGATGGTATACAAGCCATTGGTAGAAGTTCACATAAGATGATAGAGGCAGTTATGCAATCTGCTGCCAAGGGAAAGgttgaattgaggcctggaaattgttgattgaagttattaacatttactttctcctagtggttgacttttataatattcttgtcttttcatcattttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC