Sequence
atgc intronic sequence ATGC exonic sequence...catttgccactatcaaatatgccaaattctgttcatggttttgccatacttttctgcaaatgggatgggattagtttttcacctctgctagtctttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCTTTGTACATGTGATTGAATCACTAGTTTTTGTTCCT
Basic information
species | Glycine max |
transcript | GLYMA15G05080.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g45770.1 (Oryza sativa), 3'ss of exon 9
---------------catttgccactatcaaatatgccaaattctgttcatggttttgccatacttttctgcaa-atgggatgggattagtttttcacctctgctagtctttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCTTTGTACATGTGATTGAATCACTAGTTTTTGTTCCT
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gtttgtgcttattgctttacgttgtttcttggcctgctagatgctcaacttgttattatgatattatcttatggtaataaataatattttgttttcttcattgaaaattt---cagTGCAGCTTCAACATCATGCACGCCACCAACTCCCCACATTTCAACTGATATTTGTCCATGTTATCGAATCATTGGTTTTTGTTCCG
upper sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g45770.2 (Oryza sativa), 3'ss of exon 9
---------------catttgccactatcaaatatgccaaattctgttcatggttttgccatacttttctgcaa-atgggatgggattagtttttcacctctgctagtctttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCTTTGTACATGTGATTGAATCACTAGTTTTTGTTCCT--------------
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gtttgtgcttattgctttacgttgtttcttggcctgctagatgctcaacttgttattatgatattatcttatggtaataaataatattttgttttcttcattgaaaattt---cagTGCAGCTTCAACATCATGCACGCCACCAACTCCCCACATTTCAACTGATATTTGTCCATGTTATCGAATCATTGGTTTTTGTTCCGGTATGATATTTTTT
upper sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G60995.1 (Arabidopsis thaliana), 3'ss of exon 10
catttgccactatcaaatatgccaaattctgttcatggttttgccatacttttctgcaaatgggatgggattagtttttcacctctgctagtct-ttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCTTTGTACATGTGATTGAATCACTAGTTTTTGTTCCT
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-gttag--aatttcttctattccaa---tagcttatggttt--ccaatctttgcttctca------acaatcatctttgtttcgatatcactttgttgcagTGCAGCTTCAACACCATGCCCAGCATCGGTTACCAACATTTCAGTTGATCTTTGTACACGTGATCGAATCGCTTGTCTTTGTACCG
upper sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv12s0034g02140.t01 (Vitis vinifera), 3'ss of exon 9
catttgccactatcaaatatgccaaattctgttcatg----gttttgccat-acttttctgcaaatgggatgggattagtttttcacctctgctagtctttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCTTTGTACATGTGATTGAATCACTAGTTTTTGTTCCT
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--tctgg-actgatgtatgatccataggttacacacaaagagcaatgtcatcagttcttttctttctctgtgtgatt-gtgtctcattt-tctcaattattgcagTGCAGCTTCAACACCATGCTAGACATCGGCTTCCAACATTCCAGTTGATCTTTGTACACGTGATTGAATCCCTTGTCTTTGTACCAMapped 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|213617765|gb|DB959377.1|DB959377EST: AGTATCATTTACATTAAGAGAAACACAGACTCGCATGCTGAAGTTCACGG TGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCT
genomic: AGTATCATTTACATTAAGAGAAACACAGACTCGCATGCTGAAGTTCACGGgtaggaattg ... gtctttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacttttctgcaaatgggatgggattagtttttcacctctgctagtctttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCTTTGTACATGTGATTGAATCACTAGTTTTTGTTCCT
tctttac CT-rich tract
attagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catttgccactatcaaatatgccaaattctgttcatggttttgccatacttttctgcaaatgggatgggattagtttttcacctctgctagtctttacagTGCAGCTTCAACACCATGCACGGCATCGCCTTCCAACATTTCAGCTGATCTTTGTACATGTGATTGAATCACTAGTTTTTGTTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - tgccact
- - - - - - - - -tatgcca
- - - - - - - - - - - - - - - -ttcatgg
- - - - - - - - - - - - - - - - - - - - - -ccatact
- - - - - - - - - - - - - - - - - - - - - - - - - -ttctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggatggg