Sequence
atgc intronic sequence ATGC exonic sequence...gagatcttcttatgccatctgcccaattagcttcagttttgctgtcttttggaaacgagtgtttgagactattgttttttgtttgtatctgtgtgtgcagCTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGCAGGTCCTTTGAAGACATGTGTGCCCAGATGTATTATAGAGGCAAAATGT
Basic information
species | Glycine max |
transcript | GLYMA03G42190.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G42190.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0048g02580.t01 (Vitis vinifera), 3'ss of exon 1
gagatcttcttatgccatctgcccaattagcttcagttttgctgtcttttggaaacgagtgtttgagactattgttttttgtttgtatctgtgtgtg-cagCTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGCAGGTCCTTTGAAGACATGTGTGCCCAGATGTATTATAGAGGCAAAATGT
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gagaattgcgagaattgtgcaaatggtttcgtttacttttcttacattttctcaattaccaaac-agagcataatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGTMapped 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|21889023|gb|BQ742236.1|BQ742236EST: AGCCCAAATCAACCACCAATCTG CTTATTACGAAAGAGGAAGGTTTGCAGCTCTATGAAGACATGGTATTAGGC
genomic: AGCCCAAATCAACCACCAATCTGgtaccctctt ... gtgtgtgcagCTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGC
EST:
gi|16348133|gb|BI973728.1|BI973728EST: GAACAACAAGCCCAAATCAACCACCAATCTG CTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGC
genomic: GAACAACAAGCCCAAATCAACCACCAATCTGgtaccctctt ... gtgtgtgcagCTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttggaaacgagtgtttgagactattgttttttgtttgtatctgtgtgtgcagCTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGCAGGTCCTTTGAAGACATGTGTGCCCAGATGTATTATAGAGGCAAAATGT
tattgttttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagatcttcttatgccatctgcccaattagcttcagttttgctgtcttttggaaacgagtgtttgagactattgttttttgtttgtatctgtgtgtgcagCTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGCAGGTCCTTTGAAGACATGTGTGCCCAGATGTATTATAGAGGCAAAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - tgccatc
- - - - - - - - - -tgcccaa
- - - - - - - - - - - - - - -gcttcag
- - - - - - - - - - - - - - - - - - - -tgctgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtttg