Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttcttagttactattgctaaatttattaagtacaatatatacttgaatttgtggacttttctgttcttgtatttatctatattgagttggacttgaacagGTTATAGATGACATGTCTATACAAACAAATGTACCTGCTCTTGCAATGGAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os12g04010.1 (Oryza sativa), 3'ss of exon 9
gtatgcttcttagttactattgctaaatttattaagtacaatatat---acttgaatttgtggact-tttctgttcttgtatttatctatattgagttggacttgaacagGTTATAGATGACATGTCTATACAAACAAATGTACCTGCTCTTGCAATGGAAGAG
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------------------------gtatggaatagtgacaagatattttacttacatttgtaatttctttcagcgaagttaactaacaaggtaaatattcactttt-cagGTCATTGAAGATATGTCTATACAAGCAAATGTACCAGCTCTAGCAATGGAGGAG
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g04200.1 (Oryza sativa), 3'ss of exon 9
gtatgcttcttagttactattgctaaatttattaagtacaatatatacttgaatttgtggact-tttctgttcttgtatttatctatattgagttggacttgaacagGTTATAGATGACATGTCTATACAAACAAATGTACCTGCTCTTGCAATGGAAGAG
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---------------------gtatggaatagtgaccagatattttacttaaatttgtaatttctttcagcgaagttaactaacaaggtaaatattcactttt-cagGTCATTGAAGATATGTCTATACAAGCAAATGTACCAGCTCTAGCAATGGAGGAG
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G09590.1 (Glycine max), 3'ss of exon 10
gtatg-cttcttagttactattgctaaatttattaagtacaatatatacttgaatttgtggacttttctgttcttgtatttatctatattgagttggacttgaacagGTTATAGATGACATGTCTATACAAACAAATGTACCTGCTCTTGCAATGGAAGAG
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gtatgacatcaacgttcttattatctcttttgatagaca----atatacttgacact-tgaaattt---gtcttcttatttgcct----tgaattgaact-gaacagGTTATAGAGGACATGTCTATTCAAGCTAATGTGCCTGCTCTAGCAATGGAAGAA
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G02340.1 (Glycine max), 3'ss of exon 9
gtatgcttcttagttactattgctaaatttattaagtacaatatatacttgaatttgtggacttttctgttcttgtatttatctatattgagttggacttgaacagGTTATAGATGACATGTCTATACAAACAAATGTACCTGCTCTTGCAATGGAAGAG
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gtatggcatcaa--cattcttattatctcttttga-tagacaatatatttgacacttgaaa--tttctgtcttcttatttgcct----tgaattgaact-ggacagGTTATAGAGGACATGTCTATTCAAGCTAATGTGCCTGCTTTGGCAATGGAAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttgtggacttttctgttcttgtatttatctatattgagttggacttgaacagGTTATAGATGACATGTCTATACAAACAAATGTACCTGCTCTTGCAATGGAAGAG
ttgtatttatctatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcttcttagttactattgctaaatttattaagtacaatatatacttgaatttgtggacttttctgttcttgtatttatctatattgagttggacttgaacagGTTATAGATGACATGTCTATACAAACAAATGTACCTGCTCTTGCAATGGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA