Sequence
atgc intronic sequence ATGC exonic sequence...atagcaactattagaggcaatttacctttttgtatttattctgattttaatccctcttaaggatagtttttaatgttccattgattttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g10380.1 (Oryza sativa), 3'ss of exon 3
atagcaactattagaggcaatttacctttttgtatttattctgattttaatccctcttaaggatagtttt--------taatg--ttccattgattttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
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----------tttgcgaggtgctgctttttattgtttcctgtattaccatctccacttatgcgtacctgcctgtccactaatacattctctccttttttctatttatcagGTCACAGGCCAAATTAGACTACTTAGCAAGGGTAGCATCAGCTTTGGGTTGTCTGAAAATCCAATATCAGAATTTGAGCTGGTTGCAGAAGAGCTTTTAA
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G385413_T01 (Zea mays), 3'ss of exon 3
atagcaactattagaggcaattt---acctttttgtatttattctgattttaatccctcttaaggatagtttttaatgttccattg--attttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
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-cgctatttttgagatcttatttaatacctgattgcagttattt--atttgtaccattttctgtcgcatactagcat-ttccatcactattttctcattgtca-gGTGACAGGTCAAATTAGATTACTAACCAAGGGTAGTATCTGCTTTGGGTTATCAGAAAATCCAATATCAGAATTTGAGCTGGTTGCTGAAGAACTTTTAA
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 3
atagcaactattagaggcaatttacctttttgt-atttattctgattttaatccctcttaaggatagtttttaatgttccattga-ttttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
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atttca-ttggtatattttatatttttctttattaatcattgcaatgtttaaccat-tggagccaaatgtttgatatttgtttgacttctttaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGTGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAT
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G41140.1 (Glycine max), 3'ss of exon 3
atagcaactattagaggcaatttacctttttgtatttattctgattttaatccctcttaaggatagtttttaatgttccattga-ttttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
|| || || | || ||| || | ||| || || | || | | || | | ||| || || || | || | | || | ||||| ||||| ||||||| || | |||| || ||| | |||||||| |||| || |||||||| || || |||||||||||||||||||| |||||
atttcattgatatattttatatttttctttattaatcattgcaatgtttaaccat-tggagccaaatgtttgatatttgcttaaattctctaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGAGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAC
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G47020.1 (Arabidopsis thaliana), 3'ss of exon 4
-----atagcaactattagaggcaatttacctttttgtatttattctgattttaatccctcttaaggatagtttttaatgttccattgattttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
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gcttaatagaagatccttg-gtctctcttcctttgaatacttagtatgttggcactaccccctatggttgttacttgttatt----tatttttctgattctgaagGTCGGAGGTCAAATCAGTCTTTATCGGGGAAGCAGCATTGTTTTCGGGTTATCAAAATATCCAATTTCAGAATTTGAGCTTGTTGCTGAAGAACTTTTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaatccctcttaaggatagtttttaatgttccattgattttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
ttttttg CT-rich tract
atagtttttaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atagcaactattagaggcaatttacctttttgtatttattctgattttaatccctcttaaggatagtttttaatgttccattgattttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- -gcaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattga