Sequence
atgc intronic sequence ATGC exonic sequence...gtttttattttaagctttctctgtaggttttgattatatgctataccggacacaaaatatgacaaatcaatcctgcgtattaatttgttttgaattttagATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCTGGCATAACTGGAACAAATGAAAGGTGTACAGTTCTTGTCGCAAATCTCA
Basic information
species | Glycine max |
transcript | GLYMA02G08870.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G08870.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G43190.3 (Arabidopsis thaliana), 3'ss of exon 12
-------------------------------------------------gtttttattttaagct---ttctctgtaggttttgattatatgctataccggacac-----aaaatatgacaaatcaatcctgcgtattaatttgtt--ttgaattttagATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCTGGCATAACTGGAACAAATGAAAGGTGTACAGTTCTTGTCGCAAATCTCA
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gtgggtaatacagagttttagcaactcttttttggtcaagatcggtcaagatatcgccagaatctaacctccttgtccattcttaatttcttttttcgttaacagttttgattatgtgcatagttaatctcat-tcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA
upper sequence: GLYMA02G08870.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 11
---gtttttattttaagctttctctgtaggttttgattatatgctataccggacacaaaatatgacaaatcaatcctgcgtattaatttgttttgaattttagATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCTGGCATAACTGGAACAAATGAAAGGTGTACAGTTCTTGTCGCAAATCTCA
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gaaatttctggattaaattatatatttaa-ttttagttgtttgatttctgtggtattgc-tgtcccaagcatgacttggatattt-ttctttttaaaatctagATGCCCAATGCGTCTGCCATTGCTGCTGCCTTTGGAGGAGGTTTGCCCCCTGGAATTAGTGGGACAAATGACAGGTGTACTGTCCTTGTCTCTAATCTAAMapped 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|5057797|gb|AI736273.1|AI736273EST: AGCCAGGGCAGGTGGATTCTCTCAG ATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCT
genomic: AGCCAGGGCAGGTGGATTCTCTCAGgtggatgttt ... tgaattttagATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccggacacaaaatatgacaaatcaatcctgcgtattaatttgttttgaattttagATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCTGGCATAACTGGAACAAATGAAAGGTGTACAGTTCTTGTCGCAAATCTCA
tattaat putative branch site (score: 2)
tttgtttt CT-rich tract
tattaatttgttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttattttaagctttctctgtaggttttgattatatgctataccggacacaaaatatgacaaatcaatcctgcgtattaatttgttttgaattttagATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCTGGCATAACTGGAACAAATGAAAGGTGTACAGTTCTTGTCGCAAATCTCA
- - - - - - - - - ctctgta
- - - - - - - - - - - - -ggttttg
- - - - - - - - - - - - - - - - - tatatgc
- - - - - - - - - - - - - - - - - - - - - - - - -acacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcctgc