Sequence
atgc intronic sequence ATGC exonic sequence...tcatacatgaaatctagcagttgtatcaattacagagtgaagcaataaaactattgcatctgtttgttttaatgcttcatttttctttttggatatgcagGTGTAATTGAGGTTTTGGTGAACAGTGGGCGACAAATTGATGCTGTTAACTTGGCTTTTGCATTTGATCTTACTGAACAGTTTTGTCCTGTTTCTTTACT
Basic information
species | Glycine max |
transcript | GLYMA03G23760.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G23760.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G48385.1 (Arabidopsis thaliana), 3'ss of exon 3
tcatacatgaaatctagcagttgtatcaatta---cagagtgaagcaataaaactattgcatctgt-ttgttttaatgcttcatttttctttttggatatgcagGTGTAATTGAGGTTTTGGTGAACAGTGGGCGACAAATTGATGCTGTTAACTTGGCTTTTGCATTTGATCTTACTGAACAGTTTTGTCCTGTTTCTTTACT
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-catggtggatatctgtgtttttccttgtttagtttacacccagattctctaccttatcccttgatcttatctttaatgtgcactgctccttttat---tccagGTGTGATTGAAGTTCTCGTGAACAGTGGAAAACAGATTGATGCGGTTAACTTGGCATTTGCGTTTGAACTCACAGAACAGTTCTCACCTGTCTCATTACT
upper sequence: GLYMA03G23760.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0151g00650.t01 (Vitis vinifera), 3'ss of exon 2
---tcatacatgaaatctagcagttgtatcaattacagagtgaagcaataaaactattgcatctgtttgttttaatgcttcatttttctttttggatatgcagGTGTAATTGAGGTTTTGGTGAACAGTGGGCGACAAATTGATGCTGTTAACTTGGCTTTTGCATTTGATCTTACTGAACAGTTTTGTCCTGTTTCTTTACT
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acttttcacgtggaatttggaagtgatag-aaatggatattccttctgtgttagatttgg--tcattttttactgtttattgtgctttgttttgactctttagGTGTAATCGAGATACTGATAAACAGTGGAAGGCAAATTGATGCTGTTAACCTGGCTTTTGCATTTGAGCTCACAGAGCAGTTCTCACCTGTGCCTTTGCTMapped 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|207749988|gb|GD719138.1|GD719138EST: CCAAACTGCTGATTTATGTCGTTTTCTTGGGCTGTCAGAAAAGATGCCTG GTGTAATTGAGGTTTTGGTGAACAGTGGGCGACAAATTGATGCTGTT
genomic: CCAAACTGCTGATTTATGTCGTTTTCTTGGGCTGTCAGAAAAGATGCCTGgtgtgtattt ... ggatatgcagGTGTAATTGAGGTTTTGGTGAACAGTGGGCGACAAATTGATGCTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaactattgcatctgtttgttttaatgcttcatttttctttttggatatgcagGTGTAATTGAGGTTTTGGTGAACAGTGGGCGACAAATTGATGCTGTTAACTTGGCTTTTGCATTTGATCTTACTGAACAGTTTTGTCCTGTTTCTTTACT
ttttaat putative branch site (score: 3)
cttcatttttcttttt CT-rich tract
ttcatttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatacatgaaatctagcagttgtatcaattacagagtgaagcaataaaactattgcatctgtttgttttaatgcttcatttttctttttggatatgcagGTGTAATTGAGGTTTTGGTGAACAGTGGGCGACAAATTGATGCTGTTAACTTGGCTTTTGCATTTGATCTTACTGAACAGTTTTGTCCTGTTTCTTTACT
-catacat
- - - - - - - - gcagttg
- - - - - - - - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatctg