Sequence
atgc intronic sequence ATGC exonic sequence...ttttgagcaattctttggcttgtttgtagtaatactgttatctcatattttcttatctgaggaaaggaagtgtgaattcattttttgtattttcctgcagGACTCTCGCCTTGTCTACAAGCACTTTGCAACTTTATATTTCATGTTCATATTTGATAGTTCTGAAAACGAGCTTGCTATGCTTGACTTGATACAAG
Basic information
species | Glycine max |
transcript | GLYMA16G25400.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G25400.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G50860.1 (Arabidopsis thaliana), 3'ss of exon 3
ttttgagcaattctttggcttgtttgtagta-atactgttatctcatattttcttatctgaggaaaggaagtgtgaatt----cattttttgt---attttcctgcagGACTCTCGCCTTGTCTACAAGCACTTTGCAACTTTATATTTCATGTTCATATTTGATAGTTCTGAAAACGAGCTTGCTATGCTTGACTTGATACAAG
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-----------gtaatggcgtcttcattgtttatgctatataaccacaatacttagtttaacaaaaaaaaacgttgctttggacacttattatttagtgtgtttgcagGACTCGCGGCTTGTATACAAGCATTATGCTACACTCTATTTTGTTCTTGTATTTGATGGTTCAGAAAATGAGCTTGCTATGCTTGATCTCATTCAAG
upper sequence: GLYMA16G25400.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g01770.t01 (Vitis vinifera), 3'ss of exon 3
ttttgagcaattctttggcttgtttgtag-taatactgttatctcatattttctta-tctgaggaaaggaagtgtgaattcattttttgtattttcctgcagGACTCTCGCCTTGTCTACAAGCACTTTGCAACTTTATATTTCATGTTCATATTTGATAGTTCTGAAAACGAGCTTGCTATGCTTGACTTGATACAAG
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--catagtttttcatgtatatatatatacctggcattatgttttgttattccataactcctctgacctaaaacttatatacattttatcttctgtcctgtagGATACTCGTCTTGTGTACAAGCACTATGCAACTCTCTATTTTGTCTTTGTATTTGATAGTTCTGAAAATGAGTTAGCCATGCTTGATTTGATACAAGMapped 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|192308409|gb|FK002809.1|FK002809EST: GACCTGAACATGTCAGCAATTTTGTGGATGCCGAGTCCTTCTTTGGCCCG GACTCTCGCCTTGTCTACAAGCACTTTGCAACTTTATATTTCATGTTCATA
genomic: GACCTGAACATGTCAGCAATTTTGTGGATGCCGAGTCCTTCTTTGGCCCGgtatttcgtc ... tttcctgcagGACTCTCGCCTTGTCTACAAGCACTTTGCAACTTTATATTTCATGTTCATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttcttatctgaggaaaggaagtgtgaattcattttttgtattttcctgcagGACTCTCGCCTTGTCTACAAGCACTTTGCAACTTTATATTTCATGTTCATATTTGATAGTTCTGAAAACGAGCTTGCTATGCTTGACTTGATACAAG
ttttttgtattttcct CT-rich tract
tgaattcattttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgagcaattctttggcttgtttgtagtaatactgttatctcatattttcttatctgaggaaaggaagtgtgaattcattttttgtattttcctgcagGACTCTCGCCTTGTCTACAAGCACTTTGCAACTTTATATTTCATGTTCATATTTGATAGTTCTGAAAACGAGCTTGCTATGCTTGACTTGATACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT