Sequence
atgc intronic sequence ATGC exonic sequencegtgagtccaatacagctgcataatttggacttctgcaagttccttcttgcagtggccatgaaatgagctctggggtacgtacttagaatatttttgggcattacagGACAGGAAGATTACAACAGGCTAAGGCCCCTGAGCTATAGAGGAGCAGATGTGTTTTTGTTGGCCTTTTCCCTCATCAGCAAGGCCAGTTATGAGAACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S51_114V6.1 (Physcomitrella patens), 3'ss of exon 2
gtgagtccaatacagctgcataatttggacttctgcaagttccttcttgcagtggccatgaaatgagctctggggtacgtacttagaatatttttgggcattacagGACAGGAAGATTACAACAGGCTAAGGCCCCTGAGCTATAGAGGAGCAGATGTGTTTTTGTTGGCCTTTTCCCTCATCAGCAAGGCCAGTTATGAGAACAT
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--tggtccaacagctgcacatacggtcattcactgtacggtattcatctttg-ggtgatatcattcacttcatgtcattga---aaacaattcgccctgattgcagGTCAAGAAGATTACAACAGGCTTCGTCCTCTGAGTTACAGGGGTGCTGATGTTTTTCTCCTGGCGTTCTCCCTCATCAGCAAGGCTAGTTATGAAAACAT
upper sequence: Vv10s0003g00570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S257_74V6.1 (Physcomitrella patens), 3'ss of exon 2
gtgagtccaatacagctgcataatttggacttctgcaagttccttcttgcagtggccatgaaatgagctc-tggggtacgt----acttagaatatttttgggcattacagGACAGGAAGATTACAACAGGCTAAGGCCCCTGAGCTATAGAGGAGCAGATGTGTTTTTGTTGGCCTTTTCCCTCATCAGCAAGGCCAGTTATGAGAACAT
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----------tttcgcatcagaagtctcaccttacaccattcactcaaggaacagcc-tggaacgatcttattacatttgtgacgatggagatagttttcgttgaacgcagGTCAAGAAGATTACAACAGACTCCGACCTCTTAGTTACAGGGGTGCCGATGTGTTTTTACTGGCATTCTCTCTCATCAGCAAGGCTAGTTATGAAAACAT
upper sequence: Vv10s0003g00570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ09765 (Selaginella moellendorffii), 3'ss of exon 2
gtgagtccaatacagctgcataatttggacttctgcaagttccttcttgcagtggccatgaaatgagctctggggtacgtacttagaatatttttgggcattacagGACAGGAAGATTACAACAGGCTAAGGCCCCTGAGCTATAGAGGAGCAGATGTGTTTTTGTTGGCCTTTTCCCTCATCAGCAAGGCCAGTTATGAGAACAT
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-----------------------gttcgtcaaaaaaaaatctgtgtttgagg-----atgaatcaatctct------catctctggc---tgcttcgtcac-gcagGTCAAGAAGATTACAACCGCTTGAGGCCCCTCAGCTATAGAGGAGCCGATGTTTTCCTCTTGGCCTTTTCCCTTATCAGCAGGGCGAGCTATGAAAACAT
upper sequence: Vv10s0003g00570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ11645 (Selaginella moellendorffii), 3'ss of exon 2
gtgagtccaatacagctgcataatttggacttctgcaagttccttcttgcagtggccatgaaatgagctctggggtacgtacttagaatatttttgggcattacagGACAGGAAGATTACAACAGGCTAAGGCCCCTGAGCTATAGAGGAGCAGATGTGTTTTTGTTGGCCTTTTCCCTCATCAGCAAGGCCAGTTATGAGAACAT
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-----------------------gttcgtcaaaaaaaaatctgtgtttgatttgaggatgaatcaatctct------catctctggc---tgcttcgtcac-gcagGTCAAGAAGATTACAACCGCTTGAGGCCCCTCAGCTATAGAGGAGCCGATGTTTTCCTCTTGGCCTTTTCCCTTATCAGCAGGGCCAGCTATGAAAACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggccatgaaatgagctctggggtacgtacttagaatatttttgggcattacagGACAGGAAGATTACAACAGGCTAAGGCCCCTGAGCTATAGAGGAGCAGATGTGTTTTTGTTGGCCTTTTCCCTCATCAGCAAGGCCAGTTATGAGAACAT
tacttagaatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtccaatacagctgcataatttggacttctgcaagttccttcttgcagtggccatgaaatgagctctggggtacgtacttagaatatttttgggcattacagGACAGGAAGATTACAACAGGCTAAGGCCCCTGAGCTATAGAGGAGCAGATGTGTTTTTGTTGGCCTTTTCCCTCATCAGCAAGGCCAGTTATGAGAACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG