Sequence
atgc intronic sequence ATGC exonic sequence...gatgctttatgagaattgaagagtttgctatcatttttacttatttataataaattgggaaaacacaagattgtcatctgtttttgttcattttttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 9
gatgctttatgagaattgaagagtttgctatcatttttacttatttataataaattgggaaaacacaagattgtcatctgtttttgttcattt--tttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
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--cctgctatcaggattcatgtacatttaatcaattctcagtgtataagttcctttctttgacttaataattcttatgtttattactttatcaaaattgcagAGTGTTCCTGTGCAAGCTGGGCAAACACCCCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGAGGGAAGCTCAATGCCTTTGAGTCTCTTGAGCTAT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 10
-----------------------------------------------------------gatgctttatgagaattgaagagtttgctatcattttt---acttattta------taataaattgggaaaacacaagattgtcatctgtttttgttcattttttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
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gtacactttcgtatctagattttctctgttgtacatgccagtgcttcttgctcctgttaagtgttttctcttagttgtgtggtgtttattcattgtggcaatttatatgggagttcaatatgcttttttttcatctagttcttgatttcttttatcaatttttttcagAGTGTACCTGTGCAAGCTGGGCAGACACCACCACTGTTACAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAATTGT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------gatgctttatgagaattgaagagtttgctatcatttttacttatttataataaattgggaaaacacaagattgtcatctgtttttgttcattttttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
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gtacacttttgtgtttagattttctctgttgtacatgccggtgcttcttgttcctgttaagtgttttctctcagttgtatggtgt-ttattaattgtggcgatttatatgggagttc-aatatgcttttttttcatctatttctttattttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAACTGT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 11
---------------------------------------------------gatgctttatgagaattgaagagtttgctatcatttttacttatttataataaattg--ggaaaacacaagattgtcatctgtttttgttcattt-tttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
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gtatttacgcatcacacatactgatccattcatatttcttggtcttggtaagtcaatgcattcaatttagggtgtgcctaatgactaccacattaatatgttaatatgctgtctatctcaagttcttgagttgcctttgttcatttgctttcagAGTGTACCTGTGCAAGCTGGGCAAACACCACCGCTGTTGCAATACTTTGGAACTCTGTTAACCATGGGAAAACTGAATGCTTTTGAGTCACTGGAACTTT
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 11
gatgctttatgagaattgaagagtttgctatcatttttacttatttataataaattgggaaaacacaagattgtcatctgtttttgttcattt-tttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
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tacaatttaaaaccttgggtgtgcctaatgactacctcattatatgttaatatgctctctat-ctcaagttcttgagttacctttgttaatttgctttcagAGTGTACCTGTGCAAGCTGGGCAAACGCCACCGTTATTGCAATACTTTGGAACTCTGTTAACCATGGGAAAACTCAATGCTTTTGAGTCACTGGAACTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataataaattgggaaaacacaagattgtcatctgtttttgttcattttttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
tttttgttcatttttt CT-rich tract
tttttgttcatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatgctttatgagaattgaagagtttgctatcatttttacttatttataataaattgggaaaacacaagattgtcatctgtttttgttcattttttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - -aattgaa
- - - - - - - - - - - - -tgctatc
- - - - - - - - - - - - - - - - - - - - - - - - aataaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gggaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacaaga