Sequence
atgc intronic sequence ATGC exonic sequence...agctgacctttcttggtccgaagcaggggatattaccaaaaatattccagagaattccttttttttttttttttttttaatttggatgtaaacatggcagGGTCCAGAGATTCGTACTGGATTTTTGAAGGATGGGAAGCCTGTCCAACTCAAAAAGGGTCAAGAGATCACCATCTCCACTGACTATAGCATCAAGGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G003883_T01 (Zea mays), 3'ss of exon 1
agctgacctttcttggtccgaagcaggggatattaccaaaaatattcca-gagaattccttttttttttttttttttttaatttggatgtaaacatggcagGGTCCAGAGATTCGTACTGGATTTTTGAAGGATGGGAAGCCTGTCCAACTCAAAAAGGGTCAAGAGATCACCATCTCCACTGACTATAGCATCAAGGGTG
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ggattatcccatgtacgtagaaacagtac-tggaaacataattgtgctatgcaaatgtatactggcctcatatccattgcatgtactgatatatattgcagGGTCCAGAGATTAGAACTGGATTTTTGAAAGATGGGAAGCCTATTCAATTGATAAAAGGCCAAGAAATCACAATTTCTACAGACTATAGCATTCAGGGTG
upper sequence: Vv08s0007g07600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G26830.1 (Glycine max), 3'ss of exon 2
agctgacctttcttggtccgaagcaggggatattaccaaaaatattccagagaattccttttttttttttttttttttaatttggatgta---aacatggcagGGTCCAGAGATTCGTACTGGATTTTTGAAGGATGGGAAGCCTGTCCAACTCAAAAAGGGTCAAGAGATCACCATCTCCACTGACTATAGCATCAAGGGTG
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ttctaaaaaattatg--cagagttttcaaatat-gtgaattgttctttttggccttggtttgacaaagatttgagaatgattatgtcacatgtaacatggcagGGTCCAGAGATCAGAACTGGGTTTTTGAATGAAGGGAAGCCAATACAAATCCATAGGGGACAAGAAATCACAATCACAACTGATTACAGCATAAAGGGTG
upper sequence: Vv08s0007g07600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G26390.1 (Arabidopsis thaliana), 3'ss of exon 1
agctgacctttcttggtccgaagcaggggatattaccaaaaatattccagagaattcctttttttttt------ttttttttttaatttggatgtaaacatggcagGGTCCAGAGATTCGTACTGGATTTTTGAAGGATGGGAAGCCTGTCCAACTCAAAAAGGGTCAAGAGATCACCATCTCCACTGACTATAGCATCAAGGGTG
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----tattgctaataatctcatgaacgtgatagatttata--tgttttgggggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggcagGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccagagaattccttttttttttttttttttttaatttggatgtaaacatggcagGGTCCAGAGATTCGTACTGGATTTTTGAAGGATGGGAAGCCTGTCCAACTCAAAAAGGGTCAAGAGATCACCATCTCCACTGACTATAGCATCAAGGGTG
ttttaat putative branch site (score: 3)
aattcctttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agctgacctttcttggtccgaagcaggggatattaccaaaaatattccagagaattccttttttttttttttttttttaatttggatgtaaacatggcagGGTCCAGAGATTCGTACTGGATTTTTGAAGGATGGGAAGCCTGTCCAACTCAAAAAGGGTCAAGAGATCACCATCTCCACTGACTATAGCATCAAGGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
-gctgacc
- - - - -ttcttgg
- - - - - - - - - - - - aggggata
- - - - - - - - - - - - - - - - - - -aaaaata