Sequence
atgc intronic sequence ATGC exonic sequence...cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G091811_T01 (Zea mays), 3'ss of exon 4
----cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctgcttt-atatc-cttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
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tccaataatacagtgcacttttaaaaataaaaccaatgctgatttaagatatgatgatatcacttgtaacaaaatggtc-----ctgaatcctttt-attttccagCCTATCGGAAGCTTGCTAGGAGCTATCATCCAGATGTAAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G856084_T01 (Zea mays), 3'ss of exon 4
----cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctgct-ttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
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tagtagtacctgatactgaatagagt--atgaatttgatatacataacatgatgttgtattgtttattttctgtg--ttggtcctgaatcctttt-attttccagCCTATCGGAAGCTTGCTAGGAGCTATCATCCAGATGTAAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G01960.1 (Glycine max), 3'ss of exon 4
---cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
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gttcctgcatatgatttacttgagtgtgcacatcttttatgtgttgattgtctgatgtatcatta-taatatcaaatttctctct--actttggacatttcagCTTATCGGAAGCTTGCCCGGAGTTATCATCCTGATGTGAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G38040.1 (Glycine max), 3'ss of exon 4
---cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctgctt--tatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
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tcctgcaaatatgatttacttgagtgtgctctttttttgtgtgtaaattgtctgttatatccttaca---atataaaatttctctct--actttggacatttcagCTTATCGGAAGCTTGCCCGGAGTTGTCATCCTGATGTGAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G14290.1 (Glycine max), 3'ss of exon 4
--------cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
|||| || | || | | | | ||||| || | ||| | | | | ||| || | | | | |||| || || || ||| ||||| ||||||||| ||| ||||||||||||||| |||||
atctgcatattatttgcttggttgtgcatattatgtattgtgatta-gtgacctagtgtgtgtgtcagcaatatcaaagctctt-------tacttttgatatttcagCATATCGGAAGCTTGCCCGGAATTATCATCCAGATGTCAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G31080.1 (Glycine max), 3'ss of exon 4
cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctg---ctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
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--tgcatattatttgcttggttgtgcatattcttttatagtgattagtgacctagtgtgtctgtcttagcaatatcaaag-ctctttacttttgatatttcagCATATCGGAAGCTTGCCCGGAATTATCATCCAGATGTCAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G39960.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------cttatgtgttacaa-actgaagttgaagaattgtttttgcatagcctgctttatatccttgcactaatataaccttactctg--tgtactcttca----tcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
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gtatgcaattctatttcactgagttccctaatcaggaaaatgcaacactcatgtgtagcattgatgtttctctttgatgagcttcatgtgttcagcttttaagttgtgcttttctatagtttgacaatgattctactctgcacctattttgcagCTTATCGGAAGCTCGCTAGGAGTTATCATCCAGATGTGAACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
ctcttcatctt CT-rich tract
actaatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttatgtgttacaaactgaagttgaagaattgtttttgcatagcctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - aaactga
- - - - - - - - - - - - - - - - - - tgcatag
- - - - - - - - - - - - - - - - - - - - - -cctgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgcac