Sequence
atgc intronic sequence ATGC exonic sequencegtatgaatacatatatgtgtatatatatatatatatttttttttcattttccttcctttctaaatttactccaacatcattataatttaatttccttcaagtatgagtttatttattttatttttttgtgtttcagGATAGTGGGACGGGCTGCATTCACAGGAAAACATCAGTGGATTCTTTCAGAAAACTACACTAGGGATGCCCATCCACCAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G18290.1 (Glycine max), 3'ss of exon 2
gtatgaatacatatatgtgtatatatatatatatatttttttttcattttccttcctttctaaatttactccaacatcattataatttaatttccttcaagtatgagtttattta--ttttatttttttgtgtt--tcagGATAGTGGGACGGGCTGCATTCACAGGAAAACATCAGTGGATTCTTTCAGAAAACTACACTAGGGATGCCCATCCACCAGAG
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--------------------------------gttggtgctttctattttcatcttctccttgctttacatta-tatttttttaagtgtttttcttgtctttcccatctcactcaagtgttgccttttaatgttgaccagGATAGTTGGACGGGCGGCATTTACAGGAAACTATCAGTGGATTCTTTTGAACAATTTCACTAGAGATGCTTATCCGCCAGAG
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G31460.1 (Glycine max), 3'ss of exon 1
gtatgaatacatatatgtgtatatatatatatatatttttttttcattttccttcctttctaaatttactcca-acatcattataatttaatttccttcaagta--tgagtttatt--tattttatttttttgtgtttcagGATAGTGGGACGGGCTGCATTCACAGGAAAACATCAGTGGATTCTTTCAGAAAACTACACTAGGGATGCCCATCCACCAGAG
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--------------------------------gtaggtgctttctgttttattctatctgcacatttaattcagacataaatttgaagtgatttttttgttgttcccgattcaagtgctgttttttttttccgttattcagTATAGTTGGACGGGCTGCATTTACAGGCAGCCATCAGTGGATTCTTTTGAACAATTTCACTAAAGATGCATATCCTCCACAG
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G31460.2 (Glycine max), 3'ss of exon 4
gtatgaatacatatatgtgtatatatatatatatatttttttttcattttccttcctttctaaatttactcca-acatcattataatttaatttccttcaagtat--gagtttatt--tattttatttttttgtgtttcagGATAGTGGGACGGGCTGCATTCACAGGAAAACATCAGTGGATTCTTTCAGAAAACTACACTAGGGATGCCCATCCACCAGAG
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------------------------------------gtgctttctgttttattctatctgcacatttaattcagacataaatttgaagtgatttttttgttgttcccgattcaagtgctgttttttttttccgttattcagTATAGTTGGACGGGCTGCATTTACAGGCAGCCATCAGTGGATTCTTTTGAACAATTTCACTAAAGATGCATATCCTCCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataatttaatttccttcaagtatgagtttatttattttatttttttgtgtttcagGATAGTGGGACGGGCTGCATTCACAGGAAAACATCAGTGGATTCTTTCAGAAAACTACACTAGGGATGCCCATCCACCAGAG
atttaat putative branch site (score: 4)
tttattttattttttt putative PPT
aagtatgagtttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaatacatatatgtgtatatatatatatatatttttttttcattttccttcctttctaaatttactccaacatcattataatttaatttccttcaagtatgagtttatttattttatttttttgtgtttcagGATAGTGGGACGGGCTGCATTCACAGGAAAACATCAGTGGATTCTTTCAGAAAACTACACTAGGGATGCCCATCCACCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA