Sequence
atgc intronic sequence ATGC exonic sequence...tgagtatttgagaagctatattatcagttaaaatgacaaagctgcatatttagtatatgtcctaacacagtgctttttactttttgtccttttgtttcagCATGCCCAGTGTGTTACCTTCCAGTGGAGCAGGCTATTGCTAGCATCCCAAGCTCCTCATCCCCATCACCTCTGCTTAAACAGTTAAATTATGTTCATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g02710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G35300.1 (Glycine max), 3'ss of exon 1
-----------------------------------------------------------tgagtatttgagaagctatattatcagttaaaatgacaaagctgcatatttagtatatgtcctaacacagtgctttttact----ttttgtcctttt--gtttcagCATGCCCAGTGTGTTACCTTCCAGTGGAGCAGGCTATTGCTAGCATCCCAAGCTCCTCATCCCCATCACCTCTGCTTAAACAGTTAAATTATGTTCATGA
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gtaagtcttgtttttccatttggccttgttttcaattcttaattcacaaacatctatcttgaatctgggtaatagcatcttatttacatgtacacacaaactgcatatttagttattgtcctcgtaggattctgttaattgggttcttgccctcttccttttcagCATGCCCTGTGTGTTATATTCCAGTGGAGCAAGCTATAGCTAGTATGCCAAGTTCCCCATCAGAATCTCCCATACTTCGCACTTTGACATATGTGCATGA
upper sequence: Vv19s0014g02710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G35210.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------tgagtatttgagaagctatattatcagttaaaatgacaaagctgcatatttagtatatgtcctaacacagtgctttttact----ttttgtcctttt--gtttcagCATGCCCAGTGTGTTACCTTCCAGTGGAGCAGGCTATTGCTAGCATCCCAAGCTCCTCATCCCCATCACCTCTGCTTAAACAGTTAAATTATGTTCATGA
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gtaagtcttgtttttccatttggccttgttttcaattcttaattcacaaacatctatcttgaatctgggtaatagcatcttttttacgtgagcacacaaactgcatatttagttattgtccttgtagatttctgttaattgggttcttgccctcttccttttcagCATGCCCTGTGTGTTATATTCCAGTGAAGCAAGCTATAGCTAGTATGCCAGGTTCCCCATCAGAATCTCCTATACTTCGCACTTTGACATATGTGCATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatttagtatatgtcctaacacagtgctttttactttttgtccttttgtttcagCATGCCCAGTGTGTTACCTTCCAGTGGAGCAGGCTATTGCTAGCATCCCAAGCTCCTCATCCCCATCACCTCTGCTTAAACAGTTAAATTATGTTCATGA
tcctaac putative branch site (score: 1)
tgctttttactttttg putative PPT
tttttactttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagtatttgagaagctatattatcagttaaaatgacaaagctgcatatttagtatatgtcctaacacagtgctttttactttttgtccttttgtttcagCATGCCCAGTGTGTTACCTTCCAGTGGAGCAGGCTATTGCTAGCATCCCAAGCTCCTCATCCCCATCACCTCTGCTTAAACAGTTAAATTATGTTCATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - -aaaatga
- - - - - - - - - - - - - - - - - - - - -ctgcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaacac