Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatgtgtattcttttattatgtaagatgtttgatttaatattgactattcaaccaagtaaactttcctttgatatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGGGAACAAACCTTGAACCAGCTGCTCACT
Basic information
species | Glycine max |
transcript | GLYMA02G39040.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G163193_T02 (Zea mays), 3'ss of exon 5
gtaagaatgtgtattcttttattatg--taagatgtttgatttaatattgactattcaa-ccaagtaaactttcctttgatatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGGGAACAAACCTTGAACCAGCTGCTCACT
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---gtaacctacacatccatgatacgatttagcttcatgtattga-attgtatgcttaatccctttccgtctgtcttgtctttgtagATTGATGCTGTTGCAAAAAGCCGTGATGGTCGATATCGCATTGTCAGTAATGATGAACGTGAGCAGACACTAAACCAATTGCTCACG
upper sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagaatgtgtattc----ttttattatgtaagatgtttgatttaatattgactatt-caaccaagtaaactttcctttgatatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGGGAACAAACCTTGAACCAGCTGCTCACT
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gtgtgaatacaaaatcagtgttagattacctgctac-tttgtatcgatgtaaatctttacaaatgtatttgtgtttctttcaatttcagATAGATGCTGTCGCGAAAAGCCGTGATGGTAAATTCAGAATGGTCAGCAATGATGAAAGGGAGCAAACCTTGAATCAATTGCTCACT
upper sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagaatgtgtattc----ttttattatgtaagatgtttgatttaatattgactattcaaccaag----taaactttcctttgata-tgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGGGAACAAACCTTGAACCAGCTGCTCACT
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gttagaataggtagtcgatgtcagattacctccggtatattaaacc-tctgggcatcttaaacaagattttctatttgcctctcatgctccagATAGATGCTGTGGCAAAAAGCCGTGATGGTAAATTCCGAATGGGGAGCAACGATGAAAGGGAGCAAACTTTAAATCAGTTGCTCACT
upper sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 5
gtaagaat-gtgtattcttttattatgtaag-atgtttg--atttaatattgactattcaacca--agtaaactttcctttgatatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGGGAACAAACCTTGAACCAGCTGCTCACT
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gttagaaccgtggaat-ttttgttgtgtattcatgttcagcattttgagcttcctggtgcgttgttagtcatgtttttcttc-ttcgcagATAGATGCTGTAGCAAAAAGCCGTGATGGTAGATTTCGCATTGTTAGCAATGATGAGCGAGAGCAAACCTTGAACCAGTTGCTTACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgtttgatttaatattgactattcaaccaagtaaactttcctttgatatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGGGAACAAACCTTGAACCAGCTGCTCACT
ctttccttt CT-rich tract
atttaatattgactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatgtgtattcttttattatgtaagatgtttgatttaatattgactattcaaccaagtaaactttcctttgatatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGGGAACAAACCTTGAACCAGCTGCTCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT