Sequence
atgc intronic sequence ATGC exonic sequenceATGGGAAAGGAATGAAAATCACACACTTTGCCTCAACTCTGCTAAAGCAATTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGGgtatgtttgtaggccttctagtttccacccataaaagcagaattattgtgggcatgtacactgcagaaccacaaaatttaagatttaatttaatttataa...
Basic information
species | Glycine max |
transcript | GLYMA16G09360.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G09360.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G48460.1 (Arabidopsis thaliana), 5'ss of exon 4
ATGGGAAAGGAATGAAAATCACACACTTTGCCTCAACTCTGCTAAAGCAATTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGGgtatgtttgtaggccttctagtttccacccataaaagcagaattattgtgggcatgtacactgcagaaccacaaaatttaagatttaatttaatttataa
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ATGGGAGAGAAATGAAAATCATACGCTTTGTCTTAACTCTGCCAAGGCTATTGGGTGTACTGTGGTTAATATAGGAACACAAGATATCATTGAAGGAAGGgtatgtgaatcaagtgact--ttgtcatcagtaatcttgaaattttggtgatggttatgactaagatttctctgtttctctaattgcag-----------
upper sequence: GLYMA16G09360.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv00s1365g00010.t01 (Vitis vinifera), 5'ss of exon 2
ATGGGAAAGGAATGAAAATCACACACTTTGCCTCAACTCTGCTAAAGCAATTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGGgtatgtttgtaggccttctagttt-------ccacccataaaagcagaattattgtgggcatgtacactgcagaaccacaaaatttaagatttaatttaatttataa
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TTGGGAGAGGAATGAAAATCACACCCTCTGCCTCAACTCTGCCAAAGCTATTGGATGTACTGTGGTCAATATCGGGACACAGGACTTCATTGAAGGAAGGgtatatttgcatgcctttccatatatgaatgctttgtttgggagttgaatttttgatatcttgaatgatgttttg--atgggttttatcgggtaatatgtct-----
upper sequence: GLYMA16G09360.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S271_37V6.1 (Physcomitrella patens), 5'ss of exon 1
ATGGGAAAGGAATGAAAATCACACACTTTGCCTCAACTCTGCTAAAGCAATTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGGgtatgtttgtaggccttctagtttccacccataaaagcag-aattattgtgggcatgtacactgcagaacca--caaaatttaagatttaatttaatttataa--------------------------------------------------
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GTGGGAGCGAATAGAGAATCACACCCTTTGTCTCAATTCTGCTAAAGCTATTGGTTGCTCTGTTGTCAACATTGGCACTCAAGACTTGGGCGACGGAAGGgtaatgactagtgcacgatttttactaaggatagatgtaacgaatgtacgaagcttgtgttgttggttgttagctgatgttggacattttaatggtgtgaccatccatagttggtgcttgatctcattagtcatgatgtgtgggttggtgcag
upper sequence: GLYMA16G09360.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S314_45V6.1 (Physcomitrella patens), 5'ss of exon 4
ATGGGAAAGGAATGAAAATCACACACTTTGCCTCAACTCTGCTAAAGCAATTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGGgtat--gtttgtaggccttctagtttccacccataaaagcagaattattgtgggcatgtacactgcag--aaccacaaaatttaagatttaatttaatttataa------------------------------------------------------------------
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ATGGGAACGAATAGAGAATCACACACTTTGCCTCAATTCCGCTAAAGCCATTGGATGCTCTGTAGTCAACATTGGCACTCAGGACTTAGGCGACGGAAGGgtaatgacaagtgcacgtctttgtttaggatgaacgtaac-gaatatatgaaactttgtatgttgatgtggacaataagacgtgttcttttcgtgaatttgtattagaatgagatggtaaaacacacttcttgcttaattttgtgagtcattttgtgtgggtgaatgcagMapped 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|208100621|gb|GD898917.1|GD898917EST: TTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGG CGTCATCTGGTGCTTGGG-TGATTTCTCAGATTATTAAG
genomic: TTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGGgtatgtttgt ... ctcatttcagCGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGGAAAGGAATGAAAATCACACACTTTGCCTCAACTCTGCTAAAGCAATTGGATGTACAGTGGTCAACATTGGCACTCAGGACTTCATTGAAGGAAGGgtatgtttgtaggccttctagtttccacccataaaagcagaattattgtgggcatgtacactgcagaaccacaaaatttaagatttaatttaatttataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtggg