Sequence
atgc intronic sequence ATGC exonic sequence...aagaaaatgagatatgcaattttactactattcttcctttggatacttcactcattttcagtttgtgttggtttcttggaacataaatatatttttacagATTCCAACGAACCCTGCTGGTCTTATTGAATATAGGGCGCATCCTTTTTGGGTTCAGAAGTACTGCCCTTCTCATGAGCATGACAGAACACCTAGATGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------------------------aagaaaatgagatatgcaattttactactattcttcctttggatacttcactcattttcagtttgtgttggtttcttggaacataaatatatttttacagATTCCAACGAACCCTGCTGGTCTTATTGAATATAGGGCGCATCCTTTTTGGGTTCAGAAGTACTGCCCTTCTCATGAGCATGACAGAACACCTAGATGCT
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gtaaggatcactttatttaccctgaccgatctgtttatgctataagttttttctgttgaacattttacttgcctgtttgtgctaataaaatct-atctccaatatcttggagaatgtgctttctc-tacatttttcatgattgacatgtttactcttgctaatatctgattacttcttttcagATTCCTACAAATATGAATGGCCTTATTGAATATAGGGCACATCCTTTCTGGGTACAAAAATACTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCT
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G36620.1 (Glycine max), 3'ss of exon 5
aagaaaatgagatatgcaattttactactattcttcctttggatac-ttcactcattttcagtttg------tgttggtttcttggaacataaatatatttttacagATTCCAACGAACCCTGCTGGTCTTATTGAATATAGGGCGCATCCTTTTTGGGTTCAGAAGTACTGCCCTTCTCATGAGCATGACAGAACACCTAGATGCT-
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---taattg---tttttaactctcatgttagattttaaaaagacatgcttgtaagttttcaccttaacctgttgttggtttttggtaatata--tattttttcacagaTTCCAACAAATCCTGCTGGTCTTATTGAATATAGGGCACATCCATTCTGGATCCAGAAATATTGCCCTACTCATGAACATGATGGTACTCCACGCTGTTG
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G08450.1 (Glycine max), 3'ss of exon 6
-aaga----aaatgagatatgcaattttactactattcttcctttggatacttcactcattttcagtttgtgttggtttcttggaacataaatatatttttacagATTCCAACGAACCCTGCTGGTCTTATTGAATATAGGGCGCATCCTTTTTGGGTTCAGAAGTACTGCCCTTCTCATGAGCATGACAGAACACCTAGATGCT
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ttagattttgaaaaagacatgcttttaagttttcaccttgacttcaaccttatatctcattgcctgtt---gttggtttttggtaatata--tattttttcacagATTCCAACAAATCCTGCTGGTCTTATTGAATATAGGGCACATCCATTCTGGATCCAGAAATATTGCCCTACTCACGAACATGATGGTACTACACGCTGTT
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G19270.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------------aagaaaatgagatatgcaattttactactattcttcctttggatacttcactcattttcagtttgtgttggtttcttg-gaacataaatatatttttacagATTCCAACGAACCCTGCTGGTCTTATTGAATATAGGGCGCATCCTTTTTGGGTTCAGAAGTACTGCCCTTCTCATGAGCATGACAGAACACCTAGATGCT
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gtacgtaaacctctttccttttctatcattttagcccataa-atatattcatgtgttgttgtt-ttgttccggatcttacacttatcgtctgttgctttgtttttctcccgaatgtaaat-tctttgaacagATACCAACAAATCATGCTGGTCTTATTGAATATAGGGCACATCCTTTTTGGGTTCAGAAGTATTGTCCTTCTCACGAACACGATGCTACCCCGAGATGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcactcattttcagtttgtgttggtttcttggaacataaatatatttttacagATTCCAACGAACCCTGCTGGTCTTATTGAATATAGGGCGCATCCTTTTTGGGTTCAGAAGTACTGCCCTTCTCATGAGCATGACAGAACACCTAGATGCT
tattttt CT-rich tract
ttggaacataaatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagaaaatgagatatgcaattttactactattcttcctttggatacttcactcattttcagtttgtgttggtttcttggaacataaatatatttttacagATTCCAACGAACCCTGCTGGTCTTATTGAATATAGGGCGCATCCTTTTTGGGTTCAGAAGTACTGCCCTTCTCATGAGCATGACAGAACACCTAGATGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
aagaaaa
- - - - - - tatgcaa
- - - - - - - - - - - - - - - ttcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acataaa