Sequence
atgc intronic sequence ATGC exonic sequencegtaattgaacattttccccttttctgttctatccaatctaaattgtgttttacacttcacactgcactgaaatgctgtaatatatgtaatgtattagtattaaacattatgtctgatgtatcagtcttgtttataatatgtctcttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGCCCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG
Basic information
species | Glycine max |
transcript | GLYMA17G20610.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 4
lower sequence: AT3G50500.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaattgaacattttccccttttctgttctatccaatctaaattgtgttttacacttcacactgcactgaaatgctgtaatatatgtaatgtattagtattaaacattatgtctgatgtatcagtcttg--tttataatatgtctcttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGCCCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG-------
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--------------------------------------------------------gtacgcagagcagtgttcttgcaacttacttgaacttttctcgttc----tcgtgtataccactctggttttaattctgtgtttgattttcctgtgaagCAAATATGCCATCGGGATCTGAAGCTGGAAAATACATTGTTAGATGGAAGTCCGGCACCTCGTTTGAAAATATGTGATTTTGGTTATTCCAAGGTACTAT
upper sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 4
lower sequence: AT3G50500.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaattgaacattttccccttttctgttctatccaatctaaattgtgttttacacttcacactgcactgaaatgctgtaatatatgtaatgtattagtattaaacattatgtctgatgtatcagtcttg--tttataatatgtctcttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGCCCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG
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--------------------------------------------------------gtacgcagagcagtgttcttgcaacttacttgaacttttctcgttc----tcgtgtataccactctggttttaattctgtgtttgattttcctgtgaagCAAATATGCCATCGGGATCTGAAGCTGGAAAATACATTGTTAGATGGAAGTCCGGCACCTCGTTTGAAAATATGTGATTTTGGTTATTCCAAG
upper sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
gtaattgaacattttccccttttctgttctatccaatctaaattgtgttttacacttcacactgcactgaaatgctgtaatatatgtaatgtattagtattaaacattatgtctgatgtatcagtcttgtttataatatgtctcttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGCCCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG
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----------------------------gtatttgagct--tttcttttttctgaaaaaaaaaatcttgaaaatttgta-ttcctttattctactaattccaa---ttata--taatttatctgacttttctatatt----cttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAGMapped 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|17152867|gb|BM142800.1|BM142800EST: GATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG CAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGC
genomic: GATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATGgtaattgaac ... cttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaaacattatgtctgatgtatcagtcttgtttataatatgtctcttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGCCCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG
gtctgat putative branch site (score: 4)
tgtctcttc putative PPT
tcttgtttataatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgaacattttccccttttctgttctatccaatctaaattgtgttttacacttcacactgcactgaaatgctgtaatatatgtaatgtattagtattaaacattatgtctgatgtatcagtcttgtttataatatgtctcttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGCCCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG