Sequence
atgc intronic sequence ATGC exonic sequence...tattgctacatggtttgcatgtaccagttatctgagcttcattccattgtttattggcatcaattgaaaatataatcctatatatcatgaatttttctagGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G888877_T01 (Zea mays), 3'ss of exon 1
-tattgctacatggtttgcatgtaccagttatctgagcttcattccattgtttattggcatcaattgaaaatataatcctatatatcatgaatttttcta----gGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
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atact-ttagttgctatttgtgttttaatt--ttgtattttatat-gtattatactggctagaaatcaggcttcaa-ctaaaataaagccaccttctttattcagGCATTTTGCAATCAATGCATGCTTGGCTCCACTTTATTCCGTGGAAGGAATGCATATAATCACAGTTGAGGGAATTGGAGATCGTCAGCGAGGTTTGCAC
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G41520.1 (Glycine max), 3'ss of exon 3
-------------------------tattgctacatggtttgcatgtaccagttatct-gagcttcattccattgtttattggcatcaattgaaaatataatcctatatatcatgaatttttctagGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
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gtaagtgtgtctttcacgcttttctcgtgccttgatgatttgattctcctacgtgtgaagtgaagcacttcaatcttgtatcttaaca-tcaaatttaccattttagtttgaaaatgttctttcagACACTATGCTATCAATGCTTGCTTAGCACCTCTATATTCTGTAGAAGGCATGCATGTGATTACAGTGGAGGGATTGGGAAGCTGCAAGCGTGGACTACAC
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G03870.1 (Glycine max), 3'ss of exon 2
------------------------tattgctacatggtttgcatgtaccagttatctgagcttcattccattgtttattggcatca----attgaaaatataatcctatatatcatga-atttttctagGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
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gtaagtgtgtcgttcactctttctcgtgccttggtgatttg-atgctcctac-atgtgaagtgtgaagcacttccttcttgtatcttgacgtcaaatttaccattttagttttgaaaatgttctttcagACACTATGCTATCAATGCTTGCTTAGCACCTCTATATTCTGTAGAAGGGATGCACGTGATTACAGTGGAGGGATTGGGAAGCTGCAAGCGTGGACTACAC
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G34890.1 (Arabidopsis thaliana), 3'ss of exon 2
tattgctacatggtttgcatgtaccagttatctgagcttcattccattgtttattggcatcaattga--aaatataatcctatatat-catgaatttttct---agGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
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-----gtgcgta-tctgtccctccta--tatgttggctttgtttagtt-tatatttgcgccttcttattgattctttctctgttcatacggaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTATTCTGTAGAAGGGATGCATGTAATATCCATTGAGGGACTTGGGCATCGCAAACTTGGCTTGCAC
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 2
tattgctacatggtttgcatgtaccagttatctgagcttcattccattgtttattggcatcaattgaaaatataatcctatatatcatgaatttttct---agGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
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------------gtgcgtatctttttctctcataggttgcatctgctt--tgcttaagtttaggccttcttatactgtt-cataccggaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGATGCATGTAATATCCATTGAAGGAGTTGGTCATCGGAAACTTGGCTTGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtttattggcatcaattgaaaatataatcctatatatcatgaatttttctagGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
tttttct CT-rich tract
aattgaaaatataatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgctacatggtttgcatgtaccagttatctgagcttcattccattgtttattggcatcaattgaaaatataatcctatatatcatgaatttttctagGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- ttgctac
- - - - - - - - gcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaata