Sequence
atgc intronic sequence ATGC exonic sequence...tccatctcaatgatgcctattctacatgatatctaaaacatgctttgcactgtgatggtgagttgaacctgaacatggcattatccatttatgaatgcagATATCTCCACGCCAAGGTCTCTTAAGAGTTCGTGAATTTACTCTGGCTGAGATTGAGCACTTTGTGGATCCTGATGACAAGTCTCACCCAAAATTTTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 3'ss of exon 3
------------------------------------------------------------tccat-ctcaatgat-----gcctattctacatgatatctaaaacatgctttgcactgtgatggtgagttgaa---------cctgaacatggcattatccatttatg--------aatgcagATATCTCCACGCCAAGGTCTCTTAAGAGTTCGTGAATTTACTCTGGCTGAGATTGAGCACTTTGTGGATCCTGATGACAAGTCTCACCCAAAATTTTCTG
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gtctgtgttttgatacattttgtctttgcgttctgcatttcgattatatgcttgaaggagtctagacttattgactataggtctatagctaactatgcttaggaaactctccactatgccatggttttttagagggttctttcttttgtgttatactcactgtttctataccatgcaaatcagATTTCTCCACGACAAGGTCTTCTACGTGTGCGTGAATTCACATTAGCCGAGATTGAGCACTTTGTGGATCCTGAGGATAAATCTCACCCAAAATTTGTTG
upper sequence: Vv17s0000g00160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g32650.1 (Oryza sativa), 3'ss of exon 3
tccatctcaatgatgcctattctacatgatatctaaaacatgct--ttgcactgtgatggtgagttgaacc-tgaacatggcattatcca--tttatgaatgcagATATCTCCACGCCAAGGTCTCTTAAGAGTTCGTGAATTTACTCTGGCTGAGATTGAGCACTTTGTGGATCCTGATGACAAGTCTCACCCAAAATTTTCTG
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-----taaggcaaaatggagtggtaatgggatctagtaattactaattactgtatgttacttgactaaacaacctatgtggtctgagacaaacttctttcactagATATCTCCTCGCCAAGGACTTCTGAGAGTCCGAGAATTTACTTTAGCGGAGATTGAGCACTTTGTGGACCCAGAGGACAAATCCCACCCAAAGTTTCGTG
upper sequence: Vv17s0000g00160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G171688_T01 (Zea mays), 3'ss of exon 3
tccatctcaatgatgcctattctacatgatatctaaaacatgctttgcactgtgatggtgagttgaa-cctgaacatggcattatccatttatgaatgc-agATATCTCCACGCCAAGGTCTCTTAAGAGTTCGTGAATTTACTCTGGCTGAGATTGAGCACTTTGTGGATCCTGATGACAAGTCTCACCCAAAATTTTCTG
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--taaaatgggaatggtcacattaattacctttatctgtaagcctgtcaccataaagccctactaaaatactctctcgactgaagcaaattttttttgctagATATCTCCCCGTCAAGGCCTTTTGAGAGTCCGTGAGTTTACTTTAGCGGAAATTGAGCACTTTGTGGACCCAGAGGACAAATCCCATCCAAAGTTTGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcactgtgatggtgagttgaacctgaacatggcattatccatttatgaatgcagATATCTCCACGCCAAGGTCTCTTAAGAGTTCGTGAATTTACTCTGGCTGAGATTGAGCACTTTGTGGATCCTGATGACAAGTCTCACCCAAAATTTTCTG
atttatgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccatctcaatgatgcctattctacatgatatctaaaacatgctttgcactgtgatggtgagttgaacctgaacatggcattatccatttatgaatgcagATATCTCCACGCCAAGGTCTCTTAAGAGTTCGTGAATTTACTCTGGCTGAGATTGAGCACTTTGTGGATCCTGATGACAAGTCTCACCCAAAATTTTCTG
-ccatctc
- - - - - -gatgcct
- - - - - - - - - - -ctacatg
- - - - - - - - - - - - - - - - - - -acatgct
- - - - - - - - - - - - - - - - - - - - - - - - - -gtgatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaacctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatggc