Sequence
atgc intronic sequence ATGC exonic sequencegtatgtccagtcctcttttgggccttacattatcaaagaattacttggaaatgtttgttgttgttattattattattatattttatttttaatggtgatcattgttattgcagGTTTGCTTATGTGAGACAAGAGGACCTGTTTTTCTCACAGTTGACAGTCCGTGAAACATTGTCTCTTGCTGCTGAACTCCAGCTCCCAGAGCTATCTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g03144.1 (Oryza sativa), 3'ss of exon 2
gtatgtccagtcctcttttgggccttacattatcaaagaattacttggaaatgtttgttgttgttattattattattatattttatttttaatggtgatcattgttattgcagGTTTGCTTATGTGAGACAAGAGGACCTGTTTTTCTCACAGTTGACAGTCCGTGAAACATTGTCTCTTGCTGCTGAACTCCAGCTCCCAGAGCTATCTTCT
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-----------gtaagcttaagctatgcttcttcagttggct--ttcacaattttt----tagtcaggtttacagagaagagctatactcattgcttttccttgt----gtagGATTGCTTACGTGAGGCAAGAGGACCTTTTCTTCTCACAGCTTACTGTTCGTGAAACGCTCTCGCTTGCTGCTGAACTTCAGCTTCGCCGCACGTTGACT
upper sequence: Vv01s0011g04670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G41110.1 (Glycine max), 3'ss of exon 2
-----------------------------gtatgtccagtcctcttttgggccttacattatcaaagaattacttggaaatgtttgt-tgttgttattattattatta--tattttatttttaatggtgatcattgttattgcagGTTTGCTTATGTGAGACAAGAGGACCTGTTTTTCTCACAGTTGACAGTCCGTGAAACATTGTCTCTTGCTGCTGAACTCCAGCTCCCAGAGCTATCTTCT
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gtatgcttgtttgtttgtgattcagaattgcatttgctgtagtttacacacacacacacacacacccacatatatatatatatatatatattttttttccagttgctaaggagatcaattaaaaggccattgtttattggtgtagGTTTGCTTATGTGAGACAGGAGGATCTCTTTTTCTCGCAGCTCACAGTGCGGGAGACATTGTCTCTTGCTACAGAACTCCAGCTTCCCAACATATCTTCT
upper sequence: Vv01s0011g04670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G26160.1 (Glycine max), 3'ss of exon 2
-----------------------------------------gtatgtccagtcctcttttgggccttacattatcaaagaattacttggaaatgtttgttgttgttattattattattat--attttatttttaatggtgatcattgttattgcagGTTTGCTTATGTGAGACAAGAGGACCTGTTTTTCTCACAGTTGACAGTCCGTGAAACATTGTCTCTTGCTGCTGAACTCCAGCTCCCAGAGCTATCTTCT
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gtatgctcgtttgtttgtgaatcagaactgtatttgctgtagtttatatatatatatatatatatatatatatatatatatatatatatatatatatatatttcttttttcagttgctaaggagatcaattaaaatgccattgtttattggtgtagGTTTGCATATGTGAGACAGGAGGATCTCTTTTTCTCGCAGCTCACAGTACGGGAGACGTTGTCTCTTGCTACAGAACTCCAGCTTCCTAACATATCTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgttattattattattatattttatttttaatggtgatcattgttattgcagGTTTGCTTATGTGAGACAAGAGGACCTGTTTTTCTCACAGTTGACAGTCCGTGAAACATTGTCTCTTGCTGCTGAACTCCAGCTCCCAGAGCTATCTTCT
ttttaat putative branch site (score: 3)
ttattattattattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtccagtcctcttttgggccttacattatcaaagaattacttggaaatgtttgttgttgttattattattattatattttatttttaatggtgatcattgttattgcagGTTTGCTTATGTGAGACAAGAGGACCTGTTTTTCTCACAGTTGACAGTCCGTGAAACATTGTCTCTTGCTGCTGAACTCCAGCTCCCAGAGCTATCTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT