Sequence
atgc intronic sequence ATGC exonic sequencegtaagctactacttctttttcgagtcttcgtcatgtcatgtggaatttgatgtcacaagatttcatttcgttttcatcatgtggtttcataatctcattttactttatctggtgttggaagATTCTTTCGCTTGGTGGGACTGGGAAAGATGGGAAAGAGAAATTGACTGGATGGTCCTGCATGGTGTCAACTTGCCGCTTGCGTTTACTGGACAAGAGGC
Basic information
species | Glycine max |
transcript | GLYMA06G19780.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G19780.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g55730.1 (Oryza sativa), 3'ss of exon 3
gtaagctactacttctttttcgagtcttcgtcatgtcatgtggaatttgatgtcacaagatttcatttcgttttcatcatgtggtttcataatctcattttacttta-tctggtgttggaagATTCTTTCGCTTGGTGGGACTGGGAAAGATGGGAAAGAGAAATTGACTGGATGGTCCTGCATGGTGTCAACTTGCCGCTTGCGTTTACTGGACAAGAGGC
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------------------ttgaattttataccatgctaactttgagcaatttttctcagctgttactt--tttatggaaagtggaa--atgattttcttaaagactacttttctcttataagATTCTTTTGCTTGGTGGGATTGGGAGCGCTGGGAGAAGGAAATTGACTGGATGGCTCTTCAAGGTATCAATTTGCCTCTTGCTTTCACTGGTCAAGAAGC
upper sequence: GLYMA06G19780.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g07680.t01 (Vitis vinifera), 3'ss of exon 3
gtaagctactacttct-------------ttttcgagtcttcgtca----------tgtcatgtggaatttgatgtcacaagatttcatttcgttttcatcatgtggttt-cataatctcattttactt-tatctggtgttggaagATTCTTTCGCTTGGTGGGACTGGGAAAGATGGGAAAGAGAAATTGACTGGATGGTCCTGCATGGTGTCAACTTGCCGCTTGCGTTTACTGGACAAGAGGC
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gtgagcttctacctccaaatcgcctactatttcctaatctttgccaaacagaaatttatattatatattttggtgcctgaggcctcaaacttgaatt-atgctctgatggacactgtcttctctcctttatatgtgctttctgaagATACTTTTGCTTGGTGGGACTGGAAAAGATGGGAAAAGGAAATTGATTGGATGGCTCTCCAAGGCATCAATTTGCCTCTGGCATTTACGGGGCAAGAGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcgttttcatcatgtggtttcataatctcattttactttatctggtgttggaagATTCTTTCGCTTGGTGGGACTGGGAAAGATGGGAAAGAGAAATTGACTGGATGGTCCTGCATGGTGTCAACTTGCCGCTTGCGTTTACTGGACAAGAGGC
ataatctcatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctactacttctttttcgagtcttcgtcatgtcatgtggaatttgatgtcacaagatttcatttcgttttcatcatgtggtttcataatctcattttactttatctggtgttggaagATTCTTTCGCTTGGTGGGACTGGGAAAGATGGGAAAGAGAAATTGACTGGATGGTCCTGCATGGTGTCAACTTGCCGCTTGCGTTTACTGGACAAGAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG