Sequence
atgc intronic sequence ATGC exonic sequencegtatatgttgctcatagagatttttgtgctacgttattctaatagtatcctgcaattgatatgtgattaacatcttctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G14550.1 (Glycine max), 3'ss of exon 5
--gtatatgttgctcatagagatttttgtgctacgttattctaatagtatcctgcaattgatatgtgattaacatctt-ctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
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gtatattttttgctattggtcatttt-atgct--gtcaccctgaag---------aattaa-atttgattattttattatcattggtagTGCGGATCAATATGGGAGTCGATTTATTCAACAAAAGCTTGAAACAGCTACTACAGAAGAAAAAAACATGGTTTATCAGGAAATCATGCCACATTCCCTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G06430.1 (Glycine max), 3'ss of exon 2
gtatatgttgctc-atagagatttttgtgctacgttattctaatagtatcctgcaattgat-atgtgattaacatcttctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
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gtatattttttgctattgttcattttatgctgc--cacactga-agaatc--aaatttgattatttaattatcatt-------ggcagTGCGGATCAATATGGGAGTCGATTTATTCAACAAAAGCTAGAAACAGCTACTACAGAAGAAAAAAACATGGTTTATCAGGAAATCATGCCACATGCCCTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G06450.3 (Glycine max), 3'ss of exon 3
gtatatgttgctcatagagatttttgtgctacgttattctaatagtatcctgca-attgatatgtgattaacatctt-ctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
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-----------gtatattttttgctattgttcatt-ttatgctgccacactgaagaatcaaatttgattattttattatcattggcagTGCGGATCAATACGGGAGTCGATTTATTCAACAAAAGCTTGAAACAGCTACTACAGAAGAAAAAAACATGGTTTATCAGGAAATCATGCCACATGCCCTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G14500.1 (Glycine max), 3'ss of exon 4
gtatatgttgctcatagagatttttgtgctacgttattcta-atagtatcctgca-attgatatgtgattaacat-cttctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
|| || |||| | | | ||| | | | |||| | | | | || |||||| | || || |||||||||| || || || || ||||| ||||||||||| |||||||| || || |||||||| ||||| |||||||| ||||||||||| || || || ||
-------------gtatagtttttgctattg-gccattttgtgctgcaacctgaagaattaaatttgattattttgttttcattggcagTGCGGATCAATACGGGAGTCGATTTATTCAACAAAAGCTTGAAACAGCTACTACAGAAGAAAAAAAGATGGTTTATCAGGAAATCATGCCACATGCCCTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G14530.1 (Glycine max), 3'ss of exon 3
gtatatgttgctcatagagatttttgtgcta-cgttattctaatagtatcctgcaat-tgatatgtgattaacatctt-ctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
|| || |||| | | | | || | | |||| || | | || |||||| | || || |||||||||| || || || || ||||| ||||||||||| |||||||| || || |||||||| |||||| ||||||| ||||||||||| || || || ||
-------------gtatagtttttgctattggccattttatgctgcctccctgaaaaattaaatttgattattttattatcattggcagTGCGGATCAATACGGGAGTCGATTTATTCAACAAAAGCTTGAAACAGCTACTACAGAAGAAAAAAACTTGGTTTATCAGGAAATCATGCCACATGCCCTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G04060.2 (Glycine max), 3'ss of exon 4
gtatatgttgctcat-------agagatttttgtgctacgtt----attctaatagtatcctgcaattgat--atgtgattaacat--cttctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
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gtatatattttttttccttttgagttgttttggtgtttaattttatattgccataatgtctactaatgaattaagttcaatgatattgctctaacatgcagTGCTGATCAATATGGGAGCCGGTTTATTCAACAAAAGCTTGAAACTGCAACTACTGAAGAAAAAAACATGGTTTATCAAGAAATCATGCCTCAAGCTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgttattctaatagtatcctgcaattgatatgtgattaacatcttctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
gattaac putative branch site (score: 2)
catcttct CT-rich tract
taatagtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgttgctcatagagatttttgtgctacgttattctaatagtatcctgcaattgatatgtgattaacatcttctatgagcagTGCGGACCAGTATGGAAGCCGATTCATTCAACAAAAACTTGAAACGGCCACAACAGAAGAGAAAAACATGGTTTACCAGGAAATCATTCCCCAAGCTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT