Sequence
atgc intronic sequence ATGC exonic sequence...attttaggagatggaactagcaaaatttggattatataaatgttttattagatattatatgaatttaatgtgtaaaaaaaaaaactttatactctgacagGAAATTCCGGAATCCTTAACGGCTAGACTTCTAAACGTGGAAGTGTTGGACGTGCGTTCCAACCAGCTAAACTCCCTTCCCAATTCCATTGGCTGCCTCT
Basic information
species | Glycine max |
transcript | GLYMA15G18210.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G18210.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os04g51580.1 (Oryza sativa), 3'ss of exon 2
-----attttaggagatggaactagcaaaattt-ggattatataaatgttttattagatattatatgaatttaatgtgtaaaaaaaaaaactttatactctgacagGAAATTCCGGAATCCTTAACGGCTAGACTTCTAAACGTGGAAGTGTTGGACGTGCGTTCCAACCAGCTAAACTCCCTTCCCAATTCCATTGGCTGCCTCT
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tactaacctttttttacag--ttgacaaaacttcggagaaagtaaaaaaaaatccgatctttatacgagacttaaatttccttccg----ttttggaaaaccgcagAGCATCCCGGAGTCAATAATCGCTCGGCTGCTGAACGTGGTGGTGCTGGACGTGCGGTCCAACCAGCTGAAATCGCTGCCCAACTCCATCGGCTGCCTCT
upper sequence: GLYMA15G18210.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G072518_T01 (Zea mays), 3'ss of exon 1
attttaggagatggaactagcaaaatttggattatata-aatgttttattagatattatatgaat--ttaatg---tgtaaaaaaaaaaactttatactctgacagGAAATTCCGGAATCCTTAACGGCTAGACTTCTAAACGTGGAAGTGTTGGACGTGCGTTCCAACCAGCTAAACTCCCTTCCCAATTCCATTGGCTGCCTCT
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----tatgtggtggatggagaaatactcatcatatatacagtaccacgaaaaacatgtaattaataactaacgtgctgtcgttggaaaaaatctaaaacc--gcagAGCATTCCGGAGTCCATAATCGCGAGGCTCCTGAACGTGGTGGTGCTGGACGTGCGCTCCAACCAGCTCAAGTCGCTGCCCAACTCCATCGGCTGCCTCTMapped 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|192334553|gb|FK024484.1|FK024484EST: TTGACTTAGCCACCATTTGCAAGTTGGACCTATCTAATAACAATCTCCAG GAAATTCCGGAATCCTTAACGGCTAGACTTCTAAACGTGGAAGTGTTGGAC
genomic: TTGATTTAGCCACCATTTGCAAGTTGGACCTATCTAATAACAATCTCCAGgtacgtcaaa ... actctgacagGAAATTCCGGAATCCTTAACGGCTAGACTTCTAAACGTGGAAGTGTTGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattagatattatatgaatttaatgtgtaaaaaaaaaaactttatactctgacagGAAATTCCGGAATCCTTAACGGCTAGACTTCTAAACGTGGAAGTGTTGGACGTGCGTTCCAACCAGCTAAACTCCCTTCCCAATTCCATTGGCTGCCTCT
atttaat putative branch site (score: 4)
atattatatgaattta 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttaggagatggaactagcaaaatttggattatataaatgttttattagatattatatgaatttaatgtgtaaaaaaaaaaactttatactctgacagGAAATTCCGGAATCCTTAACGGCTAGACTTCTAAACGTGGAAGTGTTGGACGTGCGTTCCAACCAGCTAAACTCCCTTCCCAATTCCATTGGCTGCCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa