Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttctattgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os01g39380.3 (Oryza sativa), 3'ss of exon 16
gtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttctattg-tttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
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--gtatcttgaagtttcagtcaaaccataacattgcgtactctatttatcta-tggctgccataccttcccatgtcccaacataacttttatttctctttgcagCTTTGATTGAGTCTGACGCAGAAGGCATTGGGGGTAGTGGCTTTGTTGAGTGCATCAGAGAGCATATTCATTCG
upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G074572_T01 (Zea mays), 3'ss of exon 15
gtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttctattgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
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------------------------gtattgtgaaatttcagtttactatttgtctgttccttccataccctccctgtatttttcctaagt-ttccttttgcagCTTTGATTGAGTCTGACGCAGAAGGCATCGGGGGAAGTGGCTTTGTTGAATGCATCAGAGAGCATATTCATTCG
upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 15
---------------------------------gtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttctattgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
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gtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaagtctggagagcttgtcaaa-----aagtgattgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: EFJ09845 (Selaginella moellendorffii), 3'ss of exon 15
gtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttctattgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
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----------------------------------------------------gtaagatctcgt-tctcattacgtagtgctcctaagctttt-tttctgcagCTTTGATTGAGTCCGATGCGGAAGGTATTGGTGGAAGTGGATTTGTTGAGTGTGTCAGGGAGCATATTCACTCG
upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: EFJ15218 (Selaginella moellendorffii), 3'ss of exon 15
gtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttcta---ttgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
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---------------------------------------------------------gtaagatctctttctcattacgtagtgctcctaagctttttttctgcagCTTTGATTGAGTCCGATGCGGAAGGTATTGGTGGAAGTGGATTTGTTGAGTGTGTCAGGGAGCATATTCACTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatggtggtttttggagtcttgcaaatgaataagtattttctattgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
ttttctattgttttt CT-rich tract
aaatgaataagtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttctattgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA