Sequence
atgc intronic sequence ATGC exonic sequencegtaagcagcatgttcatagtttttattgctttgaaactgaaggaaattgattctatataagtcagggtttgttcttttgtttcaacagGTTGCTATAAAAAAGATGAAGAGGAAATATTATTCCTGGGAAGAATGTTTAAATCTGAGAGAAGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G34610.1 (Glycine max), 3'ss of exon 2
gtaagcagcatgttcatagtttttattgctttgaaactgaaggaaatt-gattctata-taagtcagggtttgttcttttgtttcaacagGTTGCTATAAAAAAGATGAAGAGGAAATATTATTCCTGGGAAGAATGTTTAAATCTGAGAGAAGTCAAG
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gtaagta-tgctttaattgacataatgaaggtggctctatttcaagttagatgttgtcctaaatcctaataagttgttaaatt---gcagGTTGCTATCAAGAAAATGAAGAAGAAATATTACTCTTGGGAGGAGTGTGTAAACCTGAGAGAAGTCAAG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G35190.1 (Glycine max), 3'ss of exon 2
gtaagcagcatgttcatagtttttattgctttgaaactgaaggaaattg-attctata-taagtcagggtttgttcttttgtttcaacagGTTGCTATAAAAAAGATGAAGAGGAAATATTATTCCTGGGAAGAATGTTTAAATCTGAGAGAAGTCAAG
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gtaagta-tgctttaactgacatgataaaggtatctctatttcaagttggatgttgtcctaaatcctaataagttgtaaaatt---gcagGTTGCTATCAAGAAAATGAAGAAGAAATATTACTCTTGGGAGGAGTGTGTAAACCTGAGAGAAGTCAAG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 2
gtaagcagcatgttcatagtttttattgctttgaaactgaaggaaattgattctatataagtcagggtttgttcttttgtttcaacagGTTGCTATAAAAAAGATGAAGAGGAAATATTATTCCTGGGAAGAATGTTTAAATCTGAGAGAAGTCAAG
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---gtaagtatgtttagagtagaatgatacgcgaagttacattgtgtgtgttttctctaa-------tttgtcctaatatt---acagGTTGCAATCAAGAAAATGAAAAAGAAATATTACTCTTGGGAGGAGTGTGTAAACCTGAGAGAAGTCAAG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 2
gtaagcagcatgttcatagtttttattgctttgaaactgaaggaaattg-attctatataagtcagggtttgttcttttgtttcaacagGTTGCTATAAAAAAGATGAAGAGGAAATATTATTCCTGGGAAGAATGTTTAAATCTGAGAGAAGTCAAG
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-----------gtaagtatgttttg--ggtcgaatgatacgtgaagttgcattttgtattttctctaatttgtcctaatatt---acagGTTGCAATCAAGAAAATGAAAAAGAAATATTACTCTTGGGAGGAGTGTGTAAACCTGAGAGAAGTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaactgaaggaaattgattctatataagtcagggtttgttcttttgtttcaacagGTTGCTATAAAAAAGATGAAGAGGAAATATTATTCCTGGGAAGAATGTTTAAATCTGAGAGAAGTCAAG
aattgat putative branch site (score: 4)
tttgttcttttgtttc putative PPT
aaattgattctatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcagcatgttcatagtttttattgctttgaaactgaaggaaattgattctatataagtcagggtttgttcttttgtttcaacagGTTGCTATAAAAAAGATGAAGAGGAAATATTATTCCTGGGAAGAATGTTTAAATCTGAGAGAAGTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT