Sequence
atgc intronic sequence ATGC exonic sequence...ttttcttatagttaatttgaatgcggtgatctgttcatttccttttcctgcacaatgcatcaacatagcactatactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0475g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G02050.1 (Glycine max), 3'ss of exon 8
ttttcttatagttaatttgaatg--cggtgatctgttcatttccttttcctgcacaat-gcatcaacatagcactatactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
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-tttcaaacatactcttggtatgattcattttctggtaaacaaatagttaagaatagttacttcctttctgtgac-tatcttaatgctttaaaa-gcttacagGTTGCACCGAAGACATTCATTCCTGTTTTATTTGGACATGGTAATGATGACCAATTCATTCAGCCTCACCACTCTGATCTCATCTCTGAATCATATGCG
upper sequence: Vv00s0475g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G12950.1 (Glycine max), 3'ss of exon 6
ttttcttatagttaatttgaatgcggtgatctgttcatttccttttcctgcacaat-gcatcaacatagcacta--tactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
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--aacatactcttagtataatagcattcattttctcgtaaacaattagccaagaatagtttcttcctttctgtgactatcttaatactttaaaa-gcttacagGTTGCACCGAAGACATTCATTCCTGTTTTACTTGGACATGGTAATGATGACCAATTCATTCAGCCTCACCACTCTGATCTCATCTCTGAATCATATGCG
upper sequence: Vv00s0475g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G40050.1 (Glycine max), 3'ss of exon 8
-ttttcttatagttaatttgaatgcggtgatctgttcatttccttttcctgcacaatgcatcaacatagc-actatactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
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atctgagcatgataggtattattttc-tggctaaacaaatttttaagtagaatcattttctttccatgcctatcttaaattaattctttttaa-atccacagGTTGCACCGAAGACATTCATTCCTGTTTTATTTGGACATGCAAGCGATGACAAATTCATTCAGCCTCACCATTCTGATCTCATCTCTGAAGCCTATGCA
upper sequence: Vv00s0475g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 8
ttttcttatagttaatttgaatgcggtgatctg-ttcatttccttttcctgcacaat-gcatcaacatagcactatactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
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-tggaatctgagcatgaaaggtattattttctggctaaacaaatttttaagtagagttgttttctttccatgtctaaaattaat-tcttattaaatccacagGTTGCACCAAAGACATTCATTCCTGTTTTATTTGGACATGCAAGCGATGACAAATTCATTCAGCCTCACCATTCTGATCTCATCTCTGAAGCCTATGCA
upper sequence: Vv00s0475g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G17150.2 (Arabidopsis thaliana), 3'ss of exon 7
ttttcttatagttaatttgaatgcggtgatctgttcatttccttttcctgcacaatgcatcaacatagcactatactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
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gtgttttataagcacctct----ccctattctttcttgtcatttactccaagtaaggtagtatgttaccattttagtgaagttttcgattttccctccagGTTTCGCCCAAGACTTTTATTCCAGCTTTATTTGGGCATGCAAGCGGAGACAAATTCATCCAACCTCATCACTCTGACCTCATTCTCAAGTGCTATGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctgcacaatgcatcaacatagcactatactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
ttgtaac putative branch site (score: 2)
tatactttaatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcttatagttaatttgaatgcggtgatctgttcatttccttttcctgcacaatgcatcaacatagcactatactttaatgttttgtaacacttgcagGTTGCACCTAAAACATTTATTCCTGCTCTATTTGGCCATGCTACTGAGGACAAATTCATTCAACCCCACCACTCTGACATCATTTTCAAGTCCTATTCG
- - - - - - - - - gaatgcg
- - - - - - - - - - - - - - - - - - - - - - - - - - caatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catagca