Sequence
atgc intronic sequence ATGC exonic sequencegtccgctttgcttcctagagttttctcgtcggtgcataatatgatccatggttgataattaactctgtgtagtttagactttagacgtttagtaactttgagcttctgttaattttttaattaattaattattttgttaaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
Basic information
species | Glycine max |
transcript | GLYMA14G03760.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g05050.3 (Oryza sativa), 3'ss of exon 1
gtccgctttgcttcctagagttttctcgtcggtgcataatatgatccatggttgataattaactctgtgtagtttagactttagacgtttagtaactttgagcttctgttaattttttaattaattaattattttgttaaattgt----agAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
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-----------------------------------------taatttgcaat--atgatttgcttggtgctcttgtcactctac---ttta-----tttttcttttttttgcttttttatgtagtgatgtgttttatctttctctgtccagAGGGCTGTCCTTGATCCAGCAATGCAAGGCAAAGATATGATTGGACGTGCAAGAACTGGAACTGGGAAAACGTTGGCTTTTGGTATTCCTATCATGGACA
upper sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G22310.1 (Arabidopsis thaliana), 3'ss of exon 1
gtccgctttgcttcctagagttttctcgtcggtgcataatatgatccatggttgataattaactctgtgtagtttagactttagacgtttagtaact-ttgagcttctgttaattttttaattaattaat-tattttgttaaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
|| |||| | |||||| ||| | | |||| | | ||| || || || | |||| | | || || | | ||| ||| ||| ||| ||||||||||| || || ||| | ||||||||||||||||| || || || |||||||| || ||||| |||||||||||||| || || || || |
---------------------------------------------gtatatatgatcttcttctctgttccattt-ggttatagagatcaattaaaagtttagatttttttaactgagtttttgatgtttgtgtttggttgaat---agAAAGCTGTGTTGGAGCCAGCGATGGAGGGTCGTGATATGATTGGCCGTGCAAGGACTGGAACGGGAAAGACACTTGCTTTTGGGATTCCTATTATTGACA
upper sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 1
gtccgctttgcttcctagagttttctcgtcggtgcataatatgatccatggttgataattaactctgtgtagtttagactttagacgtttagtaactttgagcttctgttaattttttaattaattaattattttgttaaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
| || ||| | | | | || | | | ||| || ||| | | | |||| | ||| | | | | || || | | || | ||||| |||||| |||| || || ||| | ||||| |||||||||||||| ||||| |||||||| || ||||| |||||||||||||| || ||||| || |
---------------------------------gtatgtaatgttgtgagatcaa-----aattttaaattgttcagcttttcgtgttcccatgtttttggaagaagggtaagtgggttttaagtt--ttgtggttttga---gtagAAAGCTGTGCTGGAGCCAGCGATGGAGGGTCGAGATATGATTGGTCGTGCTAGGACTGGAACGGGAAAGACACTTGCTTTTGGGATTCCTATCATTGACA
upper sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
gtccgctttgcttcctagagttttctcgtcggtgcataatatgatccatggttgataattaactctgtgtagtttagactttagacgtttagtaactttgagcttctgttaattttttaattaattaattattttgttaaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
||| | || ||| | | ||| ||| || | || | | || || || ||| ||| || ||| ||| || |||| | || | |||| |||||| |||||||||| |||||||| ||||| ||||| ||||| |||||||| || |||||||| || |||||||||||||| |||||||||||||
--------------------------------------tcatg-ttaattgttcacatttatttcttgatatgtcagtaactcaatattcggt--tttggagattccatt--tttcgtaaa-aaaaaatttgtacattg---tacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATAMapped 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|213619469|gb|DB967743.1|DB967743EST: TTGTCTCCGCTTTGGCCAAGAAAGGCATCACCAAGCTCTTCCCCATTCAG AGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCT
genomic: TTGTCTCCGCTTTGGCCAAGAAAGGCATCACCAAGCTCTTCCCCATTCAGgtccgctttg ... taaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCT
EST:
gi|209699422|gb|BW664142.1|BW664142EST: TTGTCTCCGCTTTGGCCAAGAAAGGCATCACCAAGCTCTTCCCCATTCAG AGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCT
genomic: TTGTCTCCGCTTTGGCCAAGAAAGGCATCACCAAGCTCTTCCCCATTCAGgtccgctttg ... taaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactttgagcttctgttaattttttaattaattaattattttgttaaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
ttttgtt CT-rich tract
ttaattttttaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccgctttgcttcctagagttttctcgtcggtgcataatatgatccatggttgataattaactctgtgtagtttagactttagacgtttagtaactttgagcttctgttaattttttaattaattaattattttgttaaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
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