Sequence
atgc intronic sequence ATGC exonic sequence...aaaggtctgaattttctaaaagcagttttttgatgtattttttatatgcttactagttactactttgtgtagatgttaacacttccatgttgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
Basic information
species | Glycine max |
transcript | GLYMA15G03320.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G03320.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G31350.1 (Arabidopsis thaliana), 3'ss of exon 3
----aaaggtctgaattttctaaaagcagttttttgatgtattttttatatgcttactagttactactttgtgtagatgttaacacttccatgttgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
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gtaggatgttttaacttctctttatgtactcgtt--gtgcaatgataacatttaaaaagaatgttggtataaacgaaggttacatctttggtat------gcagGTGATTGGCTCAGCTATGGATAAAGACCGGATTCCTGGAATTGATATGGCCTTGAAGGATGGTGACAAATGGATGTTTGCTGGCCATGAAGTCCATGTTA
upper sequence: GLYMA15G03320.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G43430.2 (Arabidopsis thaliana), 3'ss of exon 2
aaaggtctgaattttctaaaa--gcagtttt-ttgatgtattttttatatgcttactagttactactttgtgtagatgttaacactt---ccatgttgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
| || | || | ||| ||| | || | || ||| | || || || | | | |||| | | ||||||| | ||||||||||| |||| || || | |||||||||| ||||| || | |||| ||| ||||||||||||||||||||||||||||||| || ||
-----tttggacctttttgttttgcacctttgtcgagttgttcttttcgtttttgcttcttttatatatactcaagtgtttttatgtgacttatgttgccga-cagGTGATTGGATCAGCTGTAGATAAAGATCGGATTCCTGGAATTGACATACTTCTGAAGGATAGTGATAAGTGGATGTTTGCTGGCCATGAGGTTCGGATAC
upper sequence: GLYMA15G03320.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G06130.2 (Arabidopsis thaliana), 3'ss of exon 3
aaaggtctgaattttctaaaagcagttttttgatgtattttttatatgcttactagttactactttgt-gtagatgttaa-----cacttccatgttgca---aaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
| | || || || | | | | | || || | | | || | ||||| ||| | |||| |||| || || | | ||||||| || |||| | || | | | |||||||||| |||||| | |||||| |||| ||| || |||||||||||||||||||| || | | | |
-gtaggcggatcttacttctctctctctctctgtccatattgtgtggagatgcttcaaagacttttgttgtaattattaattgcacactatattggtggatgtacttagGTGATCGGCTCAGCTGCAGATAGGGACCGGATTCCTGGAATTGATGTAGCCTTGAAAGATGCTGACAAATGGATGTTTGCTGGCCATGAAGTCCATATTA
upper sequence: GLYMA15G03320.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0102g01180.t01 (Vitis vinifera), 3'ss of exon 5
-----aaaggtctgaattttctaaaagcagttttttgatgtattttttatatgcttactagttactactttgtgtagatgttaacacttccatgt-tgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
||| | ||||| | || || |||| | |||| | || ||| | || |||||| | | ||| | || || | |||| |||||||| |||| |||||| | | |||||||| |||||||| ||||| ||||| || |||||||||||||| |||||||||||| |||||
tttgtgaagcagttcattttgcccatgc----ttatgattttttttgaaattgtaaacttat-gcttttttgtg-aagttttaccctttttgtgggtttcttgtagGTAATTGGTTCTGGAATAGACAAGGATCGAATTCCTGGAATTGATATAGTTTTGAAAGATGGAGACAAGTGGATGTTTGCAGGCCATGAGGTGGTTGTAAMapped 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|192296216|gb|FG989757.1|FG989757EST: ATGATCACACGGGTGGAAATGTAGAATTGAAAGCAAGATACGGGGCAAAG GTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCAC
genomic: ATGATCACACGGGTGGAAATGTAGAATTGAAAGCAAGATACGGGGCAAAGgtatttatat ... tgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCAC
EST:
gi|208230511|gb|GE031216.1|GE031216EST: AAATGTAGAATTGAAAGCAAGATACGGGGCAAAG GTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCAC
genomic: AAATGTAGAATTGAAAGCAAGATACGGGGCAAAGgtatttatat ... tgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcttactagttactactttgtgtagatgttaacacttccatgttgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
tgttaac putative branch site (score: 2)
atgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaggtctgaattttctaaaagcagttttttgatgtattttttatatgcttactagttactactttgtgtagatgttaacacttccatgttgcaaaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - gtctgaa
- - - - - - - - - - - - - - - tgatgta
- - - - - - - - - - - - - - - - - - - - - - - tgcttac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttcc