Sequence
atgc intronic sequence ATGC exonic sequence...gatgttgccgtaccttttttctttctagacctctttttcagtgtaggataccccgagtcaagaatatccttgctaaagtcaccatccattctttttccagGTACAAAGACAATCGCCATGTTAGCATGGGAGCTGAGAAATGGTTAGATATTGAACTTTGGAATTCCACACAAGAGTGCTTTGAAGTTCTGAAATCACGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G49880.1 (Glycine max), 3'ss of exon 1
gatgttgccgtaccttttttctttctagacctctttttcagtgtaggataccccgagtcaagaatatccttgctaaagt----caccatccattctttttccagGTACAAAGACAATCGCCATGTTAGCATGGGAGCTGAGAAATGGTTAGATATTGAACTTTGGAATTCCACACAAGAGTGCTTTGAAGTTCTGAAATCACGT
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-----------------gttattattacgagttatgaacagtgttatttgacatt-gttgaaaatgctgttattgaaatgttttgcctgacttccttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G26320.1 (Glycine max), 3'ss of exon 1
--------gatgttgccgtacc-ttttttctttctagacctctttttcagtgtaggataccccgagtcaagaatatccttgctaaagtcaccatccattctttttccagGTACAAAGACAATCGCCATGTTAGCATGGGAGCTGAGAAATGGTTAGATATTGAACTTTGGAATTCCACACAAGAGTGCTTTGAAGTTCTGAAATCACGT
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ataagaggggtgttgcgttctgattttgttattataatccataactgcagt-taagagactgctttcaattgaaatgttt--------tgcctggcttccttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G15390.1 (Arabidopsis thaliana), 3'ss of exon 2
---gatgttgccgtaccttttttctttctagacctctttttcagtgta-ggataccccgagtcaagaatatccttgctaaagtcaccatccattctttttccagGTACAAAGACAATCGCCATGTTAGCATGGGAGCTGAGAAATGGTTAGATATTGAACTTTGGAATTCCACACAAGAGTGCTTTGAAGTTCTGAAATCACGT
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atccattagttgttgactgaaatgtaaaaaaggtttgattgcattgtgtgaattcatttaccgtgctatgtgtgtgttaatgt----atattatatatgtgtagGTATAACGGAAATCGCCATGTGAGTATGGGAGCTGAGAAATGGCTGGACATTGAGTTTTGGGACACACCTAAAGAATGTTTCAAAGTTTTGAAGTCTCGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggataccccgagtcaagaatatccttgctaaagtcaccatccattctttttccagGTACAAAGACAATCGCCATGTTAGCATGGGAGCTGAGAAATGGTTAGATATTGAACTTTGGAATTCCACACAAGAGTGCTTTGAAGTTCTGAAATCACGT
tgctaaa putative branch site (score: 2)
ccatccattctttttc putative PPT
attcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatgttgccgtaccttttttctttctagacctctttttcagtgtaggataccccgagtcaagaatatccttgctaaagtcaccatccattctttttccagGTACAAAGACAATCGCCATGTTAGCATGGGAGCTGAGAAATGGTTAGATATTGAACTTTGGAATTCCACACAAGAGTGCTTTGAAGTTCTGAAATCACGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - -ccgtacc
- - - - - - - - - - - - - - - - - - - - - - - - -accccga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatcca