Sequence
atgc intronic sequence ATGC exonic sequencegtaatctaggatgaataagttttctgttctaaatctgagagtcctatcatattcatgcatgatctggttttgatgatgttttatcatgattgagagaagaggcaaatcttgcttattttagttactgacaggcagatgtgttatattactaacagGTCTTGGTTTCAGTATCGGAAGCACGTTCCATTATTTTATACATCAGGGATGTTGAGAAGTTTCTTCTCCAATCAGATAGATTTTACAAATTGTTCCAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G23250.1 (Glycine max), 3'ss of exon 7
gtaatctaggatgaataagttttctgttctaaatctgagagtcctatcatattcatgcatgatctggttttgatgatgttttatcatgattgagagaagaggcaaatct--tgcttatttt-------agttactg-acaggcagatgtgttatattactaacagGTCTTGGTTTCAGTATCGGAAGCACGTTCCATTATTTTATACATCAGGGATGTTGAGAAGTTTCTTCTCCAATCAGATAGATTTTACAAATTGTTCCAGA
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gtgattta--ataactgaaaacgtattttagaagttcttatttaaattgcatctaacgacaacct--ttttggcagcatctacgtgagatgagtataacaaatttgtcacatggctatcttcaagtagagtttttacactaacaagatcattgtaatttttgcagCTTTTGGTTTTTATCACAGAAACTAGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCGTTCTCCAATCACCAAGGTTATATAATTTACTACAAA
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G29040.1 (Glycine max), 3'ss of exon 7
gtaatctaggatgaataagttttctgttctaaatctgagagtcctatcatattcatgcatgatctggttttgatgatgttttatcatgattgagagaagaggcaaat--cttgcttatttt-------agtt-----actgacaggcagatgtgttatattactaacagGTCTTGGTTTCAGTATCGGAAGCACGTTCCATTATTTTATACATCAGGGATGTTGAGAAGTTTCTTCTCCAATCAGATAGATTTTACAAATTGTTCCAGA
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gtgatttaattactgaaaacttattttaccagttc--atatttaaattgtatcta-acgtcaacctttgttggcaacatttacatgagatgagtataacgaatttgtcacttggctatcttcaagtagagttcttacactaataacaagata-attgtaatatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCATTCTCCAATCACCAAGGTTATATAATTTACTACAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcaaatcttgcttattttagttactgacaggcagatgtgttatattactaacagGTCTTGGTTTCAGTATCGGAAGCACGTTCCATTATTTTATACATCAGGGATGTTGAGAAGTTTCTTCTCCAATCAGATAGATTTTACAAATTGTTCCAGA
tactgac putative branch site (score: 1)
ttattttagttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatctaggatgaataagttttctgttctaaatctgagagtcctatcatattcatgcatgatctggttttgatgatgttttatcatgattgagagaagaggcaaatcttgcttattttagttactgacaggcagatgtgttatattactaacagGTCTTGGTTTCAGTATCGGAAGCACGTTCCATTATTTTATACATCAGGGATGTTGAGAAGTTTCTTCTCCAATCAGATAGATTTTACAAATTGTTCCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT