Sequence
atgc intronic sequence ATGC exonic sequencegtaaggatgttatgtttttcattctgcattttttttctccttccatatgagttggctgatgtgtagcattacagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g08750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g28060.1 (Oryza sativa), 3'ss of exon 7
gtaaggatgttatgtttttcattctgcattttttttctcctt----ccatatgagttggctgatgtgt--agcattac-agATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
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gtaagagttctgaacagtgcctttggcccctgtctattgcttaatacttcagaacctgatttgcaagttcaccactactagATGGAAATGGGTTCAAAACCAGCACAATGAGACTTGGAGCAGATGTTATTGTATTCAGCTGCACACAAGATAATAG
upper sequence: Vv17s0000g08750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g36840.3 (Oryza sativa), 3'ss of exon 5
----------gtaaggatgttatgtttttcattctgcattttttttct----ccttccatatgagttggctgatgtgtagcattacagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
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gtatagccttgtgtactttttctgcagttctttggaaaattgatatctagaacccttcttttggatttactgctgtttgttgtatcagATGGAAATGGATTCAAAACTAGCACAATGAGGCTTGGAGCAGATGTGATTGTTTTTACACAAAACCAAAATAACTG
upper sequence: Vv17s0000g08750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G319760_T01 (Zea mays), 3'ss of exon 6
gtaaggatgtt---atgtttttcattctgcattttttttctccttccatatgagttggctgatgtgta-------gcattacagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
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gtaatgattcttgaaaatgctttgtgctgcttgttccattgctatatat-tgcactcactgacttggatactcacatataatagATGGAAATGGCTTCAAAACTAGCACGATGAGGCTTGGGGCAGATGCTATTGTATTCACATGCACTAAAGATGATAG
upper sequence: Vv17s0000g08750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G372477_T01 (Zea mays), 3'ss of exon 6
------------------gtaaggatgttatgtttttcattctgcattttttttctccttccatatgagttggc----tgatgtgtagcatta----cagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
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tcttcgattggacaatgtattgccaacttttgttctataatcagcaagtcatatcctgaaacccattgtctaacgttttggcatttatcactttgatcagATGGAAATGGTTTTAAGACTAGCACAATGCGGCTTGGGGCAGATGTTATTGTTTTCAGTCGCTGCACTAAGAGCAG
upper sequence: Vv17s0000g08750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G09550.1 (Glycine max), 3'ss of exon 5
gtaaggatgttatgtttttcattctgcattttttttctccttccatatgagttggctgatg--tgtagcattacagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
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gtatggactttg-gcattctgtttgcaatgattttgatactttcttttgtgtttatttttccttttggccttgtagATGGAAATGGCTTCAAGACTGGTAGTATGAGACTGGGTGCAGATGTCATTGTCTTCAGCCGCCACCAGAATAATAT
upper sequence: Vv17s0000g08750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G35870.1 (Glycine max), 3'ss of exon 6
gtaagga---tgttatgtttttcattctgcattttt-tttctccttccatatgagttggctgat------gtgtagcattacagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
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gtacggattgtgacttgtttttctgctatcatattggtattccctttcatatttattttttaatttttcaatttggtgttctagATGGAAATGGCTTCAAGACCAGTAGTATGAGGCTTGGTGCAGATGTCATAGTCTTCAGTTGCCATCTAAATAATAG
upper sequence: Vv17s0000g08750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G19100.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------------------------------------------------------------------gtaaggatgttatgtttttcattctgcattt----tttttctccttccatatgagttggc---tgatgtgtagcattac----agATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
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gtatgaatctttcgcttcattctctaaactctttatctttagttatgattctgcaacacatatctctgattctcattttgcattacataccattagttatgattttgaaactcagatctttaattatgattctgcatctcaccttcattattatctttagATGGAAATGGTTTCAAGACCAGCACAATGAGACTTGGGGCAGATGTCATCGTCTTCAGCCGCCATTCGAAGAACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattctgcattttttttctccttccatatgagttggctgatgtgtagcattacagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
ggctgat putative branch site (score: 4)
attttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggatgttatgtttttcattctgcattttttttctccttccatatgagttggctgatgtgtagcattacagATGGAAATGGCTTCAAGACCAGCTCTATGAGACTTGGAGCAGATGTTATTGTCTTCAGCCGCCACCTGGACAATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG