Sequence
atgc intronic sequence ATGC exonic sequencegcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCTCTGATAGATTTGAGATGTGGGGGGATGGATTGCAAACACGATCATTTAC
Basic information
species | Glycine max |
transcript | GLYMA20G36740.3 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G28840.1 (Arabidopsis thaliana), 3'ss of exon 4
gcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataag--tttgtgttttgttgttttgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCTCTGATAGATTTGAGATGTGGGGGGATGGATTGCAAACACGATCATTTAC
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-----------------------------------------gtagtatacagataaac-agtttccgtactttgtgtgaatgattagttgtttactattgggattaatatttgcttggatcaactt--agGTGGAAGGGAGAAGGCTCCAGCTGCTTTCTGTAGGAAGGCTCAGACTTCCACTGATAGGTTTGAGATGTGGGGAGATGGGCTTCAGACCCGTTCTTTTAC
upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 4
lower sequence: EFJ12864 (Selaginella moellendorffii), 3'ss of exon 3
gcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCTCTGATAGATTTGAGATGTGGGGGGATGGATTGCAAACACGATCATTTAC
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----------------------------------------------------gtgagc-ggtctaaagtttgttcttta-----ctctcgtagctcatgtattggtgatt-gatgaaaaacaattcagGTGGACGGGAGAAGGCTCCAGCGGCATTTTGTAGGAAAGCTCTAACTTCCACTGATAAGTTTGAGATGTGGGGTGATGGGAAGCAAACACGATCATTTAC
upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 4
lower sequence: EFJ09286 (Selaginella moellendorffii), 3'ss of exon 3
gcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCTCTGATAGATTTGAGATGTGGGGGGATGGATTGCAAACACGATCATTTAC
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----------------------------------------------------gtgagc-ggtctaaagtttgttcttta-----ctctcgtagctcatgcattggtgatt-gatgaaaaccaattcagGTGGACGGGAGAAGGCTCCAGCGGCATTTTGTAGGAAAGCTCTAACTTCCACTGATAAGTTTGAGATGTGGGGTGATGGGAAGCAAACACGATCATTTAC
upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 4
lower sequence: EFJ10353 (Selaginella moellendorffii), 3'ss of exon 3
gcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCTCTGATAGATTTGAGATGTGGGGGGATGGATTGCAAACACGATCATTTAC
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------------------------------------------------gtgagttcatagattgagatcttct-tcttgct---tctttagcctgagtgggagtaactgagattgtttcaaaac-cagGTGGACGAGAGAAGGCTCCGGCTGCGTTTTGTCGAAAGGCTCTGACTTCCACCGATTCGTTTGAGATGTGGGGCGATGGAATGCAGACGCGATCCTTCACMapped 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|208297285|gb|GE089294.1|GE089294EST: CCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAG GTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCT
genomic: CCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgcttta ... tgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCTCTGATAGATTTGAGATGTGGGGGGATGGATTGCAAACACGATCATTTAC
ttgtttt CT-rich tract
ttttggatttaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCTCTGATAGATTTGAGATGTGGGGGGATGGATTGCAAACACGATCATTTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA