Sequence
atgc intronic sequence ATGC exonic sequencegtctttttaatatttaatttttaaagttatatcttttttatgttctctctcctttttttatttttattttaatttttaatttttacaagtggtttgagtttctaacaaaatgcattctaatccacattttacttgtctgattcaacagTTCTTTTGCTGTTCATGATACTAAACTCACACCAGATGTCACCTAACTTTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g16570.1 (Oryza sativa), 3'ss of exon 2
gtctttttaatatttaatttttaaagttatatcttttttatgttctctctcctttttttatttttattttaatttttaatttttacaagtggtttgagtttctaacaaaatgcattctaatccacattttacttgtctgattcaacagTTCTTTTGCTGTTCATGATACTAAACTCACACCAGATGTCACCTAACTTTCTG
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------------------------------------gtaatgtgggcatgccctttgtactaccgatatta---ttaagctgtaaaaaata--tcgattttctagttaa-tgcgatctatt----attctttttg--------ggcagTTCTTATGTTGTTCATGGTACTGAACTCACACCAGATGTCTCCGAACTTTTTG
upper sequence: Vv13s0019g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G34130.2 (Glycine max), 3'ss of exon 3
gtctttttaatatttaatttttaaagttatatcttttttatgttctctctcctttttttatttttattttaatttttaatttttacaagtggtttgagtttctaacaaaatgcattctaatccacattttacttgtctgattcaacagTTCTTTTGCTGTTCATGATACTAAACTCACACCAGATGTCACCTAACTTTCTG
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-------------------------gtattaatgtactcatattatgtttgtttttatcactttt-tgtgaatatgttttttctt----tcccttatattgcatgcaatgtccctccca-tttacgccttactgcttgtatgtttcagTTCTTCTGTTATTCATGATACTGAACTCTCACCAGATGTCCCCAAACTTTCTG
upper sequence: Vv13s0019g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G04160.1 (Glycine max), 3'ss of exon 4
gtctttttaatatttaatttttaaagttatatcttttttatgttctctctcctttttttatttttattttaatttttaatttttacaagtggtttgagtttctaacaaaatgcat-----tctaatccacattttacttgtctgattcaacagTTCTTTTGCTGTTCATGATACTAAACTCACACCAGATGTCACCTAACTTTCTG
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--------------------------------------ggtattaa-tgttctcatattatgcttgttttaaccac-attttgtgaatgtgttttttccttcctttatattgcatcaaggtcccatttacgccttactgcttatatgtttcaGTTCTTCTGTTATTCATGATACTGAACTCTCACCAGATGTCCCCAAACTTTCT- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgagtttctaacaaaatgcattctaatccacattttacttgtctgattcaacagTTCTTTTGCTGTTCATGATACTAAACTCACACCAGATGTCACCTAACTTTCTG
taacaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctttttaatatttaatttttaaagttatatcttttttatgttctctctcctttttttatttttattttaatttttaatttttacaagtggtttgagtttctaacaaaatgcattctaatccacattttacttgtctgattcaacagTTCTTTTGCTGTTCATGATACTAAACTCACACCAGATGTCACCTAACTTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG