Sequence
atgc intronic sequence ATGC exonic sequence...aacaaagaaacatgttttttttttaatcgtttcatgtctgaaaactattgcttgttgcatataactaacaatcacactgttgtttcacttgtttccttagGACATTGTTAGTGAGCACCCGGAAAGATTCTTTGTAGGTGAGATTGTTAGAGAAAAGATCTTCATGCAATATCGTAATGAAGTTCCTTATGCATGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G06100.1 (Glycine max), 3'ss of exon 5
aacaaagaaacatgttttttttttaatcgtttcatgtctgaaaactattgcttgt-tgcatataactaacaatcacactgttgtttcacttgtttccttagGACATTGTTAGTGAGCACCCGGAAAGATTCTTTGTAGGTGAGATTGTTAGAGAAAAGATCTTCATGCAATATCGTAATGAAGTTCCTTATGCATGTCAG
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caataagaactttaatataccccttgttatttc-tgctgcatatttgtttctttcatgtgctatgcttgccctaatgctaatgttgttccttaatttgcagGATATTGTCAGTGAGCATCCAGAAAGATTTTTTGTAGCTGAAATTGTTAGAGAAAAGATTTTTATGCAGTATCGAAATGAAATTCCATATGCATGTCAG
upper sequence: Vv04s0023g02120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G24870.1 (Glycine max), 3'ss of exon 5
-------------aacaaagaaacatgttttttttttaatcgtttcatgtctgaaaactattgcttgttgcatataactaacaatcacactgttgtttcacttgtttccttagGACATTGTTAGTGAGCACCCGGAAAGATTCTTTGTAGGTGAGATTGTTAGAGAAAAGATCTTCATGCAATATCGTAATGAAGTTCCTTATGCATGTCAG
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gcaactttggatacaataagaaccaaaatatttcccttgtcatttctt--ctgcatactttt--------catgtgctatgctaccttaatgttgttcc---tgaatttccagGATATTGTCAGTGAGCATCCAGAGAGATTTTTTGTAGCTGAAATTGTTAGAGAAAAGATTTTTATGCAGTATCGAAATGAAATTCCATATGCATGTCAG
upper sequence: Vv04s0023g02120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G66470.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------aacaaagaaacatgttttttttttaatcgtttcatgtctgaaaactattgctt--gttgcatataactaacaatcacactgttgtttcacttgtt--tccttagGACATTGTTAGTGAGCACCCGGAAAGATTCTTTGTAGGTGAGATTGTTAGAGAAAAGATCTTCATGCAATATCGTAATGAAGTTCCTTATGCATGTCAG
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gtactatgcatgaaaattccctgcttcagtattgaattcctctccttgctatagctaaagcttatagtctaatttgcttaatattctgaggtttgtgcttcagatgca-acaattcacttacctaatgtcttacggctatttgatttctagGATATTGTGAGCGAGCATCCAGAGAGATTTTTTGTTTCTGAGATTGTTAGAGAGAAAATATTTATGCAGTACCGAAATGAAGTTCCTTATGCATGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgcttgttgcatataactaacaatcacactgttgtttcacttgtttccttagGACATTGTTAGTGAGCACCCGGAAAGATTCTTTGTAGGTGAGATTGTTAGAGAAAAGATCTTCATGCAATATCGTAATGAAGTTCCTTATGCATGTCAG
aactaac putative branch site (score: 1)
tttcacttgtttcctt putative PPT
atataactaacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacaaagaaacatgttttttttttaatcgtttcatgtctgaaaactattgcttgttgcatataactaacaatcacactgttgtttcacttgtttccttagGACATTGTTAGTGAGCACCCGGAAAGATTCTTTGTAGGTGAGATTGTTAGAGAAAAGATCTTCATGCAATATCGTAATGAAGTTCCTTATGCATGTCAG
- -aaagaaa
- - - - - catgttt
- - - - - - - - - - - - - - - -tcatgtc
- - - - - - - - - - - - - - - - - - - - aaaacta
- - - - - - - - - - - - - - - - - - - - - - - - tgcttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacactg