Sequence
atgc intronic sequence ATGC exonic sequenceCATAATGCAGAACCTGAAGCTGTTGATCTTTTGATGGAGgtaatatgcctgatcttttaggttggtgcttacctgtgctacttcagttgatgaactaaactctttgtaatacatttttgttag
Basic information
species | Glycine max |
transcript | GLYMA06G44340.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os02g05340.1 (Oryza sativa), 5'ss of exon 8
CATAATGCAGAACCTGAAGCTGTTGATCTTTTGATGGAGgtaatatgcctgatcttttaggttggtgcttacctg--tgctacttcagttgatgaactaaactctttg-taatacatttttgttag------------
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CATAATGCTGAACCTGAAGCAGTTGATCTTCTGATGGAGgtattttcatatagtgtactaattaactcagattttattattaccacaatctgtctactgatggctatgctgatgcatgacatttcatctcctttgaag
upper sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os06g48640.2 (Oryza sativa), 5'ss of exon 8
CATAATGCAGAACCTGAAGCTGTTGATCTTTTGATGGAGgtaatatgcctgatcttttaggttggtgcttacctgtgctacttcagttgatgaactaaactctttgtaatacatttttgttag------------------------------------
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CATAATGCTGAACCTGAAGCTGTGGATCTTCTAATGGAGgtaa-gtg---aaacttctatttttaaacatatgaaaaattgttcgttctttgtattaagagtttt-cattatttgttcattggttcacaactgatgtgtgatatcaaattgcttcatag
upper sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 8
CATAATGCAGAACCTGAAGCTGTTGATCTTTTGATGGAGgtaat-atgcctgatcttttaggttggtgcttacctgtgctacttcagttgatgaactaaactc---tttgtaatacatttttgttag
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CACAATGCTGAACCAGAAGCTGTTGATCTTCTGATGGAGgtatttatgtagtattattt---tctttgctctgctttgttcattaacttgaaaaaacataattgatctcttaacaaactttag----Mapped 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|193712443|gb|FK650166.1|FK650166EST: CATAATGCAGAACCTGAAGCTGTTGATCTTTTGATGGAG GTTGAAGATCTGGATATGTTGAGTGGACATGTTGACAAAACAAATTTTAAA
genomic: CATAATGCAGAACCTGAAGCTGTTGATCTTTTGATGGAGgtaatatgcc ... tttttgttagGTTGAAGATCTGGATATGTTGAGTGGACATGTTGACAAAACAAATTTTAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATAATGCAGAACCTGAAGCTGTTGATCTTTTGATGGAGgtaatatgcctgatcttttaggttggtgcttacctgtgctacttcagttgatgaactaaactctttgtaatacatttttgttag
- - - - - - CTGAAG
- - - - - - - TGAAGC
- - - - - - - - AAGCTG
- - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - GATGGA