Sequence
atgc intronic sequence ATGC exonic sequence...tcataaatggtgcttctcatattttttgtcattttcctgcatcagtttcatagacatcatatgaaacctcacatggatgattacacaataccatttgtagGATCTGTGCTCGGTGCAACCTTGAAATTGGTCATGAAAGACATTTGAGGCGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGTCATGCTTGTGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 3'ss of exon 4
tcataaatggtgcttctcatattttttgtcattttcctgcatcagtttcatagacatcatatgaaacctcacatggatgattacacaataccatttgt--agGATCTGTGCTCGGTGCAACCTTGAAATTGGTCATGAAAGACATTTGAGGCGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGTCATGCTTGTGGT
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-ctgcactgatacttgggg-atggtaattggtaagcgagaatgggatgctgcgagttgcttttactcttactgtttcttaatatatacgcttatttcctcagGACTTGTGCCGGATGTCACAGTGAGATTGGTCATGGGCGTTTCCTTAGTTGCATGGGAGCTGTTTGGCATCCAGAATGTTTTCGCTGTCATGCTTGTAAT
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 4
-tcataaatg-gtgcttctcatattttttgtcattttcctgcatcagtttcatagacatcatatgaaacctcacatggatgattacacaataccatttgtagGATCTGTGCTCGGTGCAACCTTGAAATTGGTCATGAAAGACATTTGAGGCGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGTCATGCTTGTGGT
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gtaatgctcaagaacacaccaggatgattggcatggaag-atatcattttgaccttttttctcttactatttttttatataaactaact-tcttttctgcagAGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTTTGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGT
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G25750.1 (Glycine max), 3'ss of exon 4
-tcataaatggtgcttctcatattttttgtcattttcctgcatcagtttcatagacatcatatgaaacctcacatggatgattacacaataccatttgtagGATCTGTGCTCGGTGCAACCTTGAAATTGGTCATGAAAGACATTTGAGGCGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGTCATGCTTGTGGT
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atcaagatagaagacatttataatgtttccttttcataaattcttgaattttacttataaaacagaggctaaaactggttcttgggaaatgt-gcttgcagAATCTGTGCTGGCTGCAATTCCGAGATTGGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCAGAATGTTTTTGTTGCCATGCTTGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcatagacatcatatgaaacctcacatggatgattacacaataccatttgtagGATCTGTGCTCGGTGCAACCTTGAAATTGGTCATGAAAGACATTTGAGGCGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGTCATGCTTGTGGT
acctcac putative branch site (score: 3)
atatgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcataaatggtgcttctcatattttttgtcattttcctgcatcagtttcatagacatcatatgaaacctcacatggatgattacacaataccatttgtagGATCTGTGCTCGGTGCAACCTTGAAATTGGTCATGAAAGACATTTGAGGCGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGTCATGCTTGTGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - tgcttct
- - - - - - - - - - - - - - - - - tcctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacaata