Sequence
atgc intronic sequence ATGC exonic sequencegtgtgatatctttgattttgtttttattctgatgagaaccatatttggtgattagtgcttttacatgataggaacttacgcgggtccacatattattagatttggaaatgatgaagggctggtattttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
Basic information
species | Glycine max |
transcript | GLYMA17G07040.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07040.2 (Glycine max), 3'ss of exon 7
lower sequence: AT2G18876.2 (Arabidopsis thaliana), 3'ss of exon 5
gtgtgatatctttgattttgtttttattctgatgagaaccatatttggtgattagtgcttttacatgataggaacttacgcgggtccacatattattagatttggaaatgatgaagggctggtattttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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----------------------------------------------------gtatgggttcacatagcaag--ttcagagtgtttgtaatataggttcaatcttaattaattaaaaattg--atcttgtttt---agGAGAGGTTAAACCAAGTGTTGATGGAGAAAAAGAAGGAAACGAGATCAGGCATGGAGATTATGAATCTACTCCAG
upper sequence: GLYMA17G07040.2 (Glycine max), 3'ss of exon 7
lower sequence: AT5G57410.2 (Arabidopsis thaliana), 3'ss of exon 7
gtgtgatatctttgattttgtttttattctgatgagaaccatatttggtgattagtgcttttacatgataggaacttacgcgggtccacatattattagatttggaaatgatgaagggctggtattttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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-------------------------------------------------gttttgtatctttttctcgt--gaaacta-gcttttctgcatcctgtttaattctgcattt-tgaacgctttgtttctc----ttgtagGAACGGCTGAATCAAGTGTTAATGGAGAAAAAGAAAGAATCAAGATCTGGAATGGAGATTATGAATTTGCTACAG
upper sequence: GLYMA17G07040.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 7
---------gtgtgatatctttgattttgtttttat-tctgatgagaaccatatttggtgattagtgcttttacatgataggaacttacgcgggt--ccacatattattagatttggaaatgatgaagggctgg---------------tattttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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gtaggatcctttccatgtgtattattatgatattatcttttaggggaaacttaaa-ggttgctcatgttagcaaatgggaacatctttcatgaatgacaacatatatggagaacaggagaagttcatgagtaggaaattggggaatgattgtgtttcacttgcagGAGAGGCTTAACCAAGTTTTGATGGAGAAAAAGAAGGAATCGAGGTCTGGCATGGAGATAATGAATCTTCTTCAG
upper sequence: GLYMA17G07040.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S47_178V6.1 (Physcomitrella patens), 3'ss of exon 7
gtgtgatatctttgattttgtttttattctgatgagaaccatatttggtgattagtgcttttacatgataggaacttacgcgggtccacatattattagatttggaaatgatgaagggctggtattttgtatt-tgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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-----gtataaggaatttt---cttgtcttaataa----tttcttttacagc--gtattcctagacgactggttctcttttgcataatgtttctatcatatttgaat----tgaggtgaatgtatatcgtctggtacagGAACGATTGAACCAAGTCTTGATGGAAAAGAAAAAGGAGTCCAAGACCGGGATTGAGATAATGAATTTGCTTCAGMapped 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|192323206|gb|FK016337.1|FK016337EST: AACAAATGCATGAGATGAAGAAGAAGGAAAAAGA-TACATAAAGTTGCAG GAGAGGCTAAACCAAGCGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAG
genomic: AACAAATGCATGAGATGAAGAAGAAGGAAAAAGAATACATAAAGTTGCAGgtgtgatatc ... gtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtccacatattattagatttggaaatgatgaagggctggtattttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
atattattagattt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgatatctttgattttgtttttattctgatgagaaccatatttggtgattagtgcttttacatgataggaacttacgcgggtccacatattattagatttggaaatgatgaagggctggtattttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT