Sequence
atgc intronic sequence ATGC exonic sequence...tgagcttttaattgattatatattttgtttaaatgataaaatttctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G03460.1 (Glycine max), 3'ss of exon 5
tgagcttttaattgattatatat-tttgtttaaatgataaaatttctgggatgtgcttagtcaccatttcttacttggattgtggggcctttc---tgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
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---gcatgtatataaatatgtgtgtgtgtgtgtgtg-tgtatgcattaggtggtagtatgagaacatatgtgattagtttcttatgttctattatgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCAATTGACCCCTCTTGGCACA
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G49960.1 (Glycine max), 3'ss of exon 5
tgagcttttaattgattatatattttgtttaaatgataaaattt---ctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
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-aactgaataagggggggcccgtattgggaattcttgggcatttggtctttaatgtttct-gttaccataaaatatatttattg-acagcttcactatggcagAATCTGAAGTCAAACCTGACAATGTGGAAGCTTGGAACCCTTCCTCCTGCTTTAATTGCATTTAAAGGACTTGTTCACCCAATTGATCCCTCTTGGCACA
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 5
tgagcttttaattgattatatattttgtttaaatgataaaatt---tctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
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tgaaactgaaagagggggttcgtattgagaattcttgggcatttggtctttaatgtttct-gttaccaaaatttttttt-attg-acagtttcactatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G05950.1 (Glycine max), 3'ss of exon 5
-tgagcttttaattgattatatat-tttgtttaaatgataaaatttctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
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gtgagtgtgtgtgtgagagtgtgtgtatacatgcatg-tgtgtgtattaggtggtaatatgacaacagatgtgacctttagtttcttatgtt-ctgtgacagAATCTAAGGTCAAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCGATTGGCCCCTCTTGGCACA
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 5
-tgagcttttaattgattatatattttgtttaaatgataaaatttctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
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gtaaagtatcagagaagcctgtaatgt-tttgagttttaga---ttcgaaat-tggcaaattattgat-catgcttac-tggttttgctttgatgt-gcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
ttcttac putative branch site (score: 2)
cctttctgtt putative PPT
atttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagcttttaattgattatatattttgtttaaatgataaaatttctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA
- - - - - - - - - - - - - - - - - gataaaa
- - - - - - - - - - - - - - - - - - - - - - - -ggatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtcacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgggg