Sequence
atgc intronic sequence ATGC exonic sequence...ttatggcatgattcattatgttttgactcgtaccattcaaaatataatggttgctattttccttccattcgtcatctctcacaatctgtgcaccctgcagGACATAGAGTTTGCTGTTCATGCACATCCAACCTTGTCCGAGGTGCTTGACAAACTCTTCAAATCTGCTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01410.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 13
--ttatggcatgattcattatgttttgactcgtaccattcaaaatataatggttgctattttccttccattcgtcatctctcacaatctgtgcaccctgcagGACATAGAGTTTGCTGTTCATGCACATCCAACCTTGTCCGAGGTGCTTGACAAACTCTTCAAATCTGCTAAG
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gtgagtataatgatattatttttcttcacttggttcgtctttgttagcctttcagcagtataacttgaatttgacatgat---cactcc---caccacgcagGACATCAAGTTTGCTGTTCATGCACACCCAACATTGTCCGAGGTGCTGGACGAACTCTTTAAAGCAGCCAAG
upper sequence: Vv14s0060g01410.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 3'ss of exon 13
ttatggcatgattcattatgttttgactcgtac-cattcaaaatataatggttgctattttccttccattcgtcatctctcacaatctgtgcaccctgcagGACATAGAGTTTGCTGTTCATGCACATCCAACCTTGTCCGAGGTGCTTGACAAACTCTTCAAATCTGCTAAG
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-----------------------------gtaagtgacgagcattttattgtttatgaatggattgcatttgct-----caacgctgtttacatcccccagGACATCAAGTTTGCTGTTCATGCACACCCAACTTTGTCTGAGGTTCTGGATGAGCTCTTCAAAGCTGCCAAG
upper sequence: Vv14s0060g01410.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G145595_T01 (Zea mays), 3'ss of exon 13
-ttatggcatgattcattatgtt--ttgactcgtaccattcaaaatataatggttgctattttccttccattcgtcatctctcacaatctgt-gcaccctgcagGACATAGAGTTTGCTGTTCATGCACATCCAACCTTGTCCGAGGTGCTTGACAAACTCTTCAAATCTGCTAAG
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gtgagtttgtcatgcattctgttagctgtgtagcatttctgcatttttgttctctgcataatgctaaacgcttaaatttgcacataaccttttgtaccctgcagGACATCAAGTTTGCTGTTCATGCACACCCAACGTTGTCTGAAGTTCTGGATGAACTCTTCAAGGCTGCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatggttgctattttccttccattcgtcatctctcacaatctgtgcaccctgcagGACATAGAGTTTGCTGTTCATGCACATCCAACCTTGTCCGAGGTGCTTGACAAACTCTTCAAATCTGCTAAG
ctctcac putative branch site (score: 3)
tatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatggcatgattcattatgttttgactcgtaccattcaaaatataatggttgctattttccttccattcgtcatctctcacaatctgtgcaccctgcagGACATAGAGTTTGCTGTTCATGCACATCCAACCTTGTCCGAGGTGCTTGACAAACTCTTCAAATCTGCTAAG
- - -gcatgat
- - - - - - - - - - - - - - - - ccattca
- - - - - - - - - - - - - - - - - - - -aaatata