Sequence
atgc intronic sequence ATGC exonic sequence...gaaatctggatatcaccattttgttttgttcctttgaacttatatagtaaatgaaagtaaattgagttctaaaaacaaattatttcaacccttttggcagTGGCATAAAACAGATGAAGACTCGTCTGCTAATCGATCATCAGTTTCTGAATTTGGGGATGACAATTTTGCCATTGGCAATTGGGAACAAAAAGAAGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g01040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G146616_T01 (Zea mays), 3'ss of exon 3
-gaaatctggatatcaccattttgttttgttcctttgaacttatatagtaaat--gaaagtaaattgagttctaaaaacaaattatttcaacccttttggcagTGGCATAAAACAGATGAAGACTCGTCTGCTAATCGATCATCAGTTTCTGAATTTGGGGATGACAATTTTGCCATTGGCAATTGGGAACAAAAAGAAGTTG---------
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gtaaattttccttcctatttttagcattataaaacaaagctatcagtatatttcaggaatttacttcagcttcactttttccctttttaatacatttttggattt-cagGGATCAAGAGGAGATGGATCAGCAAAT--ACTAT-GGTGTCAGAATTTGGTGATGACAATTTTGTCATTGGAAATTGGGAGTTGAAGGAGATAATTAGCCGCG
upper sequence: Vv08s0032g01040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G35010.1 (Glycine max), 3'ss of exon 4
gaaatctggatatcaccattttgttttgttcctttgaacttatatagtaaatgaaagtaaattgagttctaaaaacaaattatttcaacccttttggcagTG--GCATAAAACAGATGAAGACTCGTCTGCTAATCGATCATCAGTTTCTGAATTTGGGGATGACAATTTTGCCATTGGCAATTGGGAACAAAAAGAAGTTG------
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--actagtgacagtaacttctgaacctgtagatacgcacttgaaaactgtttttaattagctt-atctgtaataa-----tgtttcacactgtatgtctgtcttgcagAAGACTGAGGATGATTCAGCTGCAAATCGATCATCAGTGTCTGAATTTGGGGATGACAATTTTGCTGTTGGGAGTTGGGAGCAGAAAGAAGTAATGAGCC
upper sequence: Vv08s0032g01040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G10350.1 (Glycine max), 3'ss of exon 3
gaaatctggatatcaccattttgttttgttcctttgaacttata-tagtaaatgaaagtaaattgagttctaaaaacaaattatttcaacccttttggcagTG--GCATAAAACAGATGAAGACTCGTCTGCTAATCGATCATCAGTTTCTGAATTTGGGGATGACAATTTTGCCATTGGCAATTGGGAACAAAAAGAAGTTG------
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--------attagtgacagtaacttctgaacctttagggatgcacttgaaaactgttgttaattagcttagcagtaccagt-gtttcacactgtatgtctgtcttgcagAAGACTGAGGATGATTCAGGTGCAAATCGATCATCGGTGTCCGAATTTGGGGATGACAATTTTGCTGTCGGGAGTTGGGAGCAGAAAGAAGTAATGAGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaaatgaaagtaaattgagttctaaaaacaaattatttcaacccttttggcagTGGCATAAAACAGATGAAGACTCGTCTGCTAATCGATCATCAGTTTCTGAATTTGGGGATGACAATTTTGCCATTGGCAATTGGGAACAAAAAGAAGTTG
ttctaaa putative branch site (score: 2)
ccctttt putative PPT
taaattgagttctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaatctggatatcaccattttgttttgttcctttgaacttatatagtaaatgaaagtaaattgagttctaaaaacaaattatttcaacccttttggcagTGGCATAAAACAGATGAAGACTCGTCTGCTAATCGATCATCAGTTTCTGAATTTGGGGATGACAATTTTGCCATTGGCAATTGGGAACAAAAAGAAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - -caccatt
- - - - - - - - - - - - - - - - - - - - - - - - aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa