Sequence
atgc intronic sequence ATGC exonic sequence...tgatgttgaagtcaataagcttccccatctggtatttcatttttatattatggtccagactgtgtagtattataggctacatgtttttgaatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGGATCACAGGGCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os09g12550.1 (Oryza sativa), 3'ss of exon 9
tgatgttgaagtcaataagcttccccatctggtatttcattttta--tattatggtccagactgtg--tagtattataggctacatgtttttgaatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGGATCACA-GGGCCAG---
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----atttatctgaattggtgcatttgagttgcgcttttatcatggttgataaattttgtgctgctgctgagatttgagactctgaacttattaattgctgcagTGAAATGGGCACCCATTTTTCCCCCTGTGGGCGTTTTTTGGTGGCTTGTGTTGCATGCTTACTGCCTCAAACAGAAGTTGGT----GAGCATGTAAGCCAATCG
upper sequence: Vv05s0077g00140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g18820.2 (Oryza sativa), 3'ss of exon 10
tgatgttgaagtcaataagcttccccatctggtatttcattttt---atattatggtccagactgtgtagtattataggcta----catgtttttgaatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGG-ATCACAGGGCCAG
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-----ttttagatgtttgacatga--agtgcgtattttatttttgacaaactgtgcagtggattgttgacccttctttgcttactctaaagttaataattattgcagTGAAATGGGTGCCCATTTTTCCCCTTGTGGACGATTTCTGGTAGCATGTGTTGCCTGTTTGCTGCCTCAAACTGAAGGCGACCGTGGTAGCCAATTGCCT-
upper sequence: Vv05s0077g00140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G353548_T05 (Zea mays), 3'ss of exon 9
tgatgt-tgaagtcaataagcttccccatctggtatttcatttttatattatggtccagactgtg-tagtattataggctacatgtttttgaatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGG-ATCACAGGGCCAG
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tcatatgtgaattgtacctgtacttgtacttt-tgttgcatcttatgcttgagcagggaattgtgatttcattacttactatgaacttaccaat-tttgcagTGAAATGGGTGCCCATTTTTCCCCATGTGGACGATTTCTTGTAGCCTGCGTTGCATGTTTGTTGCCTCAAACAGAAGGTGGCCGTGGTAGCCAATTGCCT-
upper sequence: Vv05s0077g00140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G007229_T01 (Zea mays), 3'ss of exon 9
tgatgttgaagtcaataagcttccc-catctggtatttcatttttatattatggtccagactgtgtagt-attataggctacatgtttttgaatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGG-ATCACAGGGCCAG
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-cgtaaataaattgctctgttgcctatatgttatgtagcatcttgagcttcagcaaggaattgtgacttcattacttactctgaacttaccga-atttacagTGAAATGGGTGCCCATTTTTCCCCATGTGGACGATTTCTGGTAGCATGTGTTGCGTGTTTGTTGCCACAAACAGAAGACGACCGTGGTAGCCAATTGCCT-
upper sequence: Vv05s0077g00140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G167886_T02 (Zea mays), 3'ss of exon 9
tgatgttgaagtcaataagcttccccatctggtatttcatttttatattatggtccagactgtgtagtattataggctacatgtttttg----aatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGGATCACAGGGCCAG
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--ttggtaatattgagtagcacttatatcatctttgctagatttctatcgca-cctgaagtttg-agactcatttacttgaagtttctgttaaattttctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAGTTGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatggtccagactgtgtagtattataggctacatgtttttgaatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGGATCACAGGGCCAG
atgtttttgaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatgttgaagtcaataagcttccccatctggtatttcatttttatattatggtccagactgtgtagtattataggctacatgtttttgaatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGGATCACAGGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - tgaagtc
- - - - - - -aataagc
- - - - - - - - - - - ccccatc