Sequence
atgc intronic sequence ATGC exonic sequencegtatgctttgtagtgtgatttttcatattattactgtaatttttcttcaaattaaagggttttaaagtgtgtgttaattttttgtagGCCCCTTCTGCTACTGTTGTTGTGAAGGGTCTATCACAGAAGACTACTGAGGAAGATCTGTACCAGATCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g07070.1 (Oryza sativa), 3'ss of exon 5
gtatgctttgtagtgtgattt-ttcata-ttat-tactgtaatttttcttcaaattaaagggttt--taaagtgtgtgttaattttttgtagGCCCCTTCTGCTACTGTTGTTGTGAAGGGTCTATCACAGAAGACTACTGAGGAAGATCTGTACCAGATCCTT
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gtatggtcattcctttgttttgtacataattgcatgcttcaaatgtgttttgaactgatgaatcaaataacatttccattcatgctt-gtagGCTCCATCTGCTACTGTTGTTGTTAAGGGTCTGTCCCAGAAGACTAATGAAGATGACCTAAACCAGATTCTT
upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 3
gtatgctttgtagtgtgatttttcatattattactgtaatttttcttcaaattaaagggttttaaagtgtgtgttaattttttgtagGCCCCTTCTGCTACTGTTGTTGTGAAGGGTCTATCACAGAAGACTACTGAGGAAGATCTGTACCAGATCCTT
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gtatgtgctgaatagtgcttttatattttag----gtaattatcttactactgttagacaatctgatttaaagctg--ttttcatagGCCCCATCTGCAACTGTTGTTGTGAAAGGTCTTTCACAGAAGACAACTGAAGAAGATCTATACCAAATCCTT
upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G35510.1 (Glycine max), 3'ss of exon 3
gtatgctttgtagtgtgatttttcatattattactgtaatttttcttcaaattaaagggttttaaagtgtgtgttaattttttgtagGCCCCTTCTGCTACTGTTGTTGTGAAGGGTCTATCACAGAAGACTACTGAGGAAGATCTGTACCAGATCCTT
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gtatgtggtgaatagtgcttttatattttag-gtgattatcttactactg-ttagacaattt-gatgtaaaagctg--ttttcatagGCCCCATCTGCAACTGTTGTTGTGAAAGGTCTTTCACAGAAGACAACTGAAGAAGATCTATACCAAATCCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtaatttttcttcaaattaaagggttttaaagtgtgtgttaattttttgtagGCCCCTTCTGCTACTGTTGTTGTGAAGGGTCTATCACAGAAGACTACTGAGGAAGATCTGTACCAGATCCTT
tgttaat putative branch site (score: 3)
ttttttgt CT-rich tract
aatttttcttcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctttgtagtgtgatttttcatattattactgtaatttttcttcaaattaaagggttttaaagtgtgtgttaattttttgtagGCCCCTTCTGCTACTGTTGTTGTGAAGGGTCTATCACAGAAGACTACTGAGGAAGATCTGTACCAGATCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA