Sequence
atgc intronic sequence ATGC exonic sequencegtaagatcctcaaaagtcaaggccctatgttccttgtttattctcttttttgggatatttttcatgtatcctcaaagttttaaactggtcttttatgttactgatgtagTGGGTATCTCGCACCAGAGTATGCCATGCGTGGGCACCTCACAGAAAAGGCCGATGCGTGTAGTTTTGGTGTTGTAGCTCTAGAGATTGTTAGTGGAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0055g00600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G25600.1 (Glycine max), 3'ss of exon 21
-------gtaagatcctcaaaa----gtcaaggccctatg-ttccttgtttattctcttttttgggatatttttcatgtatcctcaaa---gttttaaactggtctttt------atgttactgatgtagTGGGTATCTCGCACCAGAGTATGCCATGCGTGGGCACCTCACAGAAAAGGCCGATGCGTGTAGTTTTGGTGTTGTAGCTCTAGAGATTGTTAGTGGAAGT
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gtgagtcatcaatacttcataatattgtattcgtttcatgattttttttctataatttatttatggattggtctcatttttattttaattaattttatactgcccatttactcaaattcttatcatgaagTGGATATCTTGCACCGGAGTATGCCATGCGTGGCCACCTTACAGAGAAAGCAGATGTATTTTCCTTTGGTGTCGTGGCTTTAGAGTTAGTTAGTGGAAGG
upper sequence: Vv12s0055g00600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G15200.1 (Glycine max), 3'ss of exon 21
gtaagatcctcaaaagtcaaggccctatgtt---ccttgtttattctcttttt------tgggatatttttcatgtatcctcaaagttttaaactggtcttttatgttactgatgtagTGGGTATCTCGCACCAGAGTATGCCATGCGTGGGCACCTCACAGAAAAGGCCGATGCGTGTAGTTTTGGTGTTGTAGCTCTAGAGATTGTTAGTGGAAGT
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gtaagtcattaacacctaatcatattatattaatttttgttctttcattttttattgcatgtaattgttttcatatacaat-aaacttttaatgtactcaattttttg--tgatgaagTGGATATCTTGCACCAGAATATGCCATGCGTGGACATCTTACGGAGAAAGTTGATGTATTTTCCTTTGGTGTTGTGCTTTTGGAGATAGTTAGTGGAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatttttcatgtatcctcaaagttttaaactggtcttttatgttactgatgtagTGGGTATCTCGCACCAGAGTATGCCATGCGTGGGCACCTCACAGAAAAGGCCGATGCGTGTAGTTTTGGTGTTGTAGCTCTAGAGATTGTTAGTGGAAGT
tactgat putative branch site (score: 2)
aaagttttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatcctcaaaagtcaaggccctatgttccttgtttattctcttttttgggatatttttcatgtatcctcaaagttttaaactggtcttttatgttactgatgtagTGGGTATCTCGCACCAGAGTATGCCATGCGTGGGCACCTCACAGAAAAGGCCGATGCGTGTAGTTTTGGTGTTGTAGCTCTAGAGATTGTTAGTGGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG