Sequence
atgc intronic sequence ATGC exonic sequencegtaatttatcctaactcatctgttgaactggcctttactgttgtcattttatattaactaacaattctagtaaaagttatttttcttgacgagtctggtaatttgttaaaactgaaagacgagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
Basic information
species | Glycine max |
transcript | GLYMA03G04330.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G04330.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os07g48200.1 (Oryza sativa), 3'ss of exon 5
gtaatttatcctaactcatctgttgaactggcctttactgttgtcattttatattaac-taacaattctagtaaaagttatttttcttgacgagtctggtaatttgttaaaactgaaagacgagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
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-------------------------aactactgggagtggggacaattgtttctcagcataactattttaaca-----tatttcttttcatgtttgctgtcatcctgagttgccgagatac------attttgtagGCATATTTCCCTCCAATTTCTCAGCCAGAAGGTCGTCCTTTGACAATTCAAGACGCAAAAGGCAAAGAATGGCATTTTCAGTTCAGATTCTGGCCAAATA
upper sequence: GLYMA03G04330.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 5
gtaatttatcctaactcatctgttgaactggcctttactgttgtcattttatattaactaacaattctagtaaaagttatttttcttgacgagtctggtaatttgttaaaactgaaagacgagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
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----------------------------ttctgttcacgaaatttattgctagtgcaggaagcgtttctgtatgcattattttccctattgtttctgtcatcctg----agttaacaag---gttctctgtgtagGCATATTTTCCCCCAATTTCTCAACCAGAAGGACGCCCCTTGACAATTCAAGATGCAAGAGGAAAAGAATGGCATTTTCAGTTTAGGTTTTGGCCAAATA
upper sequence: GLYMA03G04330.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G172621_T01 (Zea mays), 3'ss of exon 5
gtaatttatcctaactcatctgttgaactggcctttactgttgtcattttatattaactaacaattctagtaaaagttatttttcttgacgagtctggtaatttgttaaaactgaaagac-gagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
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---------------------------------tctactgctcgtgttc-atgaaacttattgctagtgcaggaagctgcttctgt--atgcattcttttttccactgtttctgacatcctgagttctctgtgtagGCATATTTCCCCCCAATTTCCCAACCGGAAGGTCGCCCCTTGACAATTCAAGATGCAAGAGGAAAAGAATGGCATTTTCAGTTTAGGTTTTGGCCAAATA
upper sequence: GLYMA03G04330.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0058g01300.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------gtaatttatcctaact-catctgttgaactggcctttactgttgtcattttatattaac--taacaattctagtaaaagttatttttcttgacgagtctggtaatttgttaaaactgaaagacgagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
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gtaagctttccattgtgtgcttagtctggctttcatttgacaaaataatatttattgg-ttgtcttttgcatttttcattttttttcgttcttcccaaatttaactgttaagcttatttttgttgaaccttatc-tgtatatcaattgaaa--ctaaaccattttgcagGCATATTTTCCTCCTATCTCTCAACCAGAGGGCCTTCCTTTAAGGATTCAGGATGTGAAGGGGAAAGAATGGGTGTTCCAATTCAGGTTTTGGCCCAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttgacgagtctggtaatttgttaaaactgaaagacgagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
tcttgac putative branch site (score: 3)
taatttgttaaaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttatcctaactcatctgttgaactggcctttactgttgtcattttatattaactaacaattctagtaaaagttatttttcttgacgagtctggtaatttgttaaaactgaaagacgagagcattgtgcagGCATATTTCCCTCCAATCTCTCAACCAGAGGGCCTTCCTTTACGAATCCAAGATGTGAAAGGAAAAGAATGGATGTTTCAGTTTAGATTTTGGCCAAATA
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