Sequence
atgc intronic sequence ATGC exonic sequencegtactttctatttgcttcagaacatgctacatggtttaaattgccttctcttgtaatgaaaatttttatttattctccttttgacgcctatcagGATATTGGCTCCAACTTTCTATATATTCTTTGCTTCTGCCCTTCCCGTCATTGCCTTTGGGGAGCAATTGAGTAGGGAAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os05g08430.1 (Oryza sativa), 3'ss of exon 1
gtactttctatttgcttcagaacatgctacatggtttaaattgccttctcttgtaatgaaaatttttatttattctccttttgacgcc-tatcagGATATTGGCTCCAACTTTCTATATATTCTTTGCTTCTGCCCTTCCCGTCATTGCCTTTGGGGAGCAATTGAGTAGGGAAACAG
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-------gtttgtgtaatcgaacatttccaatg--ttaatttttgcatgtttgttcttaa---ttctggctgctgtattgattatgttatttcagGATATTGGCACCTACATTGTATATCTTCTTTGCATCTGCACTACCTGTTGTTGCCTTTGGGGAACAATTGAGTAATGATACAG
upper sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G07390.1 (Glycine max), 3'ss of exon 1
gtactttctatttgcttcag--aacatgctacatggtttaaattgcctt-ctcttgtaa-----tgaaaatt-tttatttattct---------ccttttgacgcctatcagGATATTGGCTCCAACTTTCTATATATTCTTTGCTTCTGCCCTTCCCGTCATTGCCTTTGGGGAGCAATTGAGTAGGGAAACAG
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gtaactcttgtttatcttgggaaacacattgcatgcttactaggacttttcttttgttaatccctaaatgctgtgtatttattctgattcgtgtttctttgattaatgacagCATATTGGCTCCAACTTTCTACATATTCTTTGCTTCTGCTCTTCCTGTCATTGCTTTTGGAGAACAGCTTAATAGGGATACAG
upper sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G07480.1 (Glycine max), 3'ss of exon 1
gtactttctatttgcttcag-----aacatgc-tacatggtttaaattgccttctctt------------gtaatgaaa--atttttatttattctccttttgacgcctatcagGATATTGGCTCCAACTTTCTATATATTCTTTGCTTCTGCCCTTCCCGTCATTGCCTTTGGGGAGCAATTGAGTAGGGAAACAG-----------------
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gtaactcttgtttatcttgggaaaaaacatgcatgcttactaggaattttctttttgttaatccctaaatgtattgcatttattcttattcatgcttcttt-gattaatggcagCATATTGGCTCCAACTTTCTACATATTCTTTGCTTCTGCTCTTCCTGTCATCGCCTTCGGAGAGCAACTTAATAGGAATACAGGCAAAACAATCTCTTTT
upper sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G32510.1 (Arabidopsis thaliana), 3'ss of exon 1
gtactttctatttgcttcagaacatgctacatggtttaaattgccttctcttgtaatgaaaatttttatttattctccttttgacgcctatcagGATATTGGCTCCAACTTTCTATATATTCTTTGCTTCTGCCCTTCCCGTCATTGCCTTTGGGGAGCAATTGAGTAGGGAAACAG
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-------gtattatactttgttcatgctt-----ttttcgttaacttctttcagaatttttttgcaaacttatcattgaac-aatggatttcagGATACTGGCTCCAACTCTCTATATTTTCATTGCCTCTGCACTACCTGTCATTGCATTCGGCGAGCAGTTAAGCAGAGAGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgccttctcttgtaatgaaaatttttatttattctccttttgacgcctatcagGATATTGGCTCCAACTTTCTATATATTCTTTGCTTCTGCCCTTCCCGTCATTGCCTTTGGGGAGCAATTGAGTAGGGAAACAG
ttttgac putative branch site (score: 3)
ttctcttgtaatgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttctatttgcttcagaacatgctacatggtttaaattgccttctcttgtaatgaaaatttttatttattctccttttgacgcctatcagGATATTGGCTCCAACTTTCTATATATTCTTTGCTTCTGCCCTTCCCGTCATTGCCTTTGGGGAGCAATTGAGTAGGGAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA