Sequence
atgc intronic sequence ATGC exonic sequence...gatggaattgaaaaatattcagaaactatatagtttatttgattggtctctttcttagtttcatctcatctagaagagcaaactaagttgggttctgcagGTAATGCTCCTGTGGATTGCCTCATTTTGGTTTGTAGGATCTTGGATAGTTCCATTTTTAGCATACACAGCAGGGTTTAGAAAGGAATCTCTTACATACA
Basic information
species | Glycine max |
transcript | GLYMA20G30380.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G30380.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g30910.1 (Oryza sativa), 3'ss of exon 3
gatggaattgaaaaatattcagaaactatatagtttatttgattggtctctttcttagtttcatctcatctaga---agagcaaactaagttgggttc------tgcagGTAATGCTCCTGTGGATTGCCTCATTTTGGTTTGTAGGATCTTGGATAGTTCCATTTTTAGCATACACAGCAGGGTTTAGAAAGGAATCTCTTACATACA
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------gttattagaaatt--gatgttgtgga-ttaaatcaaatgatctcttagcagtttacataaaatgtggtactaagataaacttggttacacttactgaatgcagGTCATGATTTTATGGATTGCCACATTTTGGTTTGTGGGTTCCTGGATAGTGCCATTTTTGGCTCATGCTGCTGGCTTTAGCAAGGAATCATTGACACATA
upper sequence: GLYMA20G30380.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0050g01870.t01 (Vitis vinifera), 3'ss of exon 3
gatggaattgaaaaatattcagaaactatatagtttatttgattggtctctttcttagtttcatctcatctagaagagcaaactaagttg---ggttctgcagGTAATGCTCCTGTGGATTGCCTCATTTTGGTTTGTAGGATCTTGGATAGTTCCATTTTTAGCATACACAGCAGGGTTTAGAAAGGAATCTCTTACATACA
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-ttgcaa--ggaagaggtcgagcaatcattttgctgttgaaattcatgttagatgaatagaaggtgaataaagattgttaagtgaaattgtctggtcctgcagGTTATGCTCCTCTGGATTGCTTCATTCTGGTTGGTGGGATCTTGGATAATTCCATTTCTGGCTCATAAAGCAGGTTTCAGAAAGGAGACCATGACACACAMapped 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|20448970|gb|BQ253094.1|BQ253094EST: CAGCAAAGACCATTGTTCAG GTAATGCTCCTGTGGATTGCCTCATTTTGGTTTGTAGGATCTTGGATAGTT
genomic: CAGCAAAGACCATTGTTCAGgtaaagtata ... ggttctgcagGTAATGCTCCTGTGGATTGCCTCATTTTGGTTTGTAGGATCTTGGATAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctctttcttagtttcatctcatctagaagagcaaactaagttgggttctgcagGTAATGCTCCTGTGGATTGCCTCATTTTGGTTTGTAGGATCTTGGATAGTTCCATTTTTAGCATACACAGCAGGGTTTAGAAAGGAATCTCTTACATACA
tttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatggaattgaaaaatattcagaaactatatagtttatttgattggtctctttcttagtttcatctcatctagaagagcaaactaagttgggttctgcagGTAATGCTCCTGTGGATTGCCTCATTTTGGTTTGTAGGATCTTGGATAGTTCCATTTTTAGCATACACAGCAGGGTTTAGAAAGGAATCTCTTACATACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - aaaaata