Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttaacctagccggttacgatttcatagcaagttgaaaaataacttacaaatgaaccacattttaggacaccatgatatggatatctactgtagaaactagcaaatatctagattgtgaactcatgatgaactaaaaatgaatattatattctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCATGCAGATAAAT
Basic information
species | Glycine max |
transcript | GLYMA03G01560.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01560.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G00460.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagtttaacctagccggttacgatttcatagcaagttgaaaaataacttacaaatgaaccacattttaggacaccatgatatggatatctactgtagaaactagcaaatatctagattgtgaactcatgatgaactaaaaatgaatattatattctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCATGCAGATAAAT
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------------------------------------------------------------------gtaaaaactgaagaata-gagtgtct--cattgaatttgatagtacactatagtaattacttaaaa------agtgttgtgctttttggtttgcagGATGTTGGAAAAGCTGTGTTGGAGAGCTACTCAAGAGTACTTGAAGGTTTAGCTTTTAACATAGTTGCTTGGATTGATGATGTTCTCTATGTAGACAAAA
upper sequence: GLYMA03G01560.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G01700.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagtttaacctagccggttacgatttcatagcaagttgaaaaataacttacaaatgaaccacattttaggacaccatgatatggatatctactgtagaaactagcaaatatctagattgtgaactcatgatgaac-taaaaatgaata--ttatattctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCATGCAGATAAAT
|| | |||||| | || | || || || | ||| | ||| ||| || || | | |||||||||| |||||||| | ||||| || || |||||||| | ||||| ||||| || ||||| || ||||||||||| ||||||||| ||| ||| |||
------------------------------------------------------------------------------------------gtaattaagaaacaaacagtgacctgaatcatgttttattgaatattataacaatttatggtttgtggtttgcagGATGTTGGAAAAGCTGTGTTAGAGAGTTATTCAAGAGTTCTTGAAGGTTTAGCTTTTAACATAGTTGCTTGGATTGATGATGTTCTTTATGTAGACAAAA
upper sequence: GLYMA03G01560.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtttaacctagccggttacgatttcatagcaagttgaaaaataacttacaaatgaaccacattttaggacaccatgatatggatatctactgtagaaactagcaaat-atctagattgtgaactcatgatgaactaaaaatgaatattatattctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCATGCAGATAAAT
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----------------------------------------------------------------------gtgagcaactgcatccaaat-tact--aaaagctaaaattccaggaaaatcatgagtagaaaatgactgaaaggaaaatatt---tgttgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatatctagattgtgaactcatgatgaactaaaaatgaatattatattctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCATGCAGATAAAT
aactaaa putative branch site (score: 2)
atgatgaactaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttaacctagccggttacgatttcatagcaagttgaaaaataacttacaaatgaaccacattttaggacaccatgatatggatatctactgtagaaactagcaaatatctagattgtgaactcatgatgaactaaaaatgaatattatattctgcagGATGTAGGAAAAGCGATATTAGAAAGCTACTCAAGAGTATTAGAAGGCTTAGCATTCAACATTGTAGCTTGGATTGAAGATGTTCTTCATGCAGATAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT