Sequence
atgc intronic sequence ATGC exonic sequencegttactagttctaatttttcttctattgacaattgctttttgaacatatttagtccctattcatggttgaggatgcttttgagacaattagtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 3'ss of exon 14
gttactagttctaatttttcttctattgacaattgctttttgaacatatttagtccctattcatggttgaggatgcttttgagacaattagtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
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------------------------------gtttacctctt-----tatttgatacgttacattatctgaaaatgctatcattctagttgctcctca--cttagt-------gcttcatt-------------------ttctagGTTGCCCGAGATTCTGATTTTGCAGAGCAAATTGGAAAACATATATATTTTGATCTTGTGGATTATGACAACATCCAAAGCCTTCGGGCACCTAAACATT
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 14
gttactagttctaatttttcttctattgacaattgctttttgaaca-tatttagtccctattcatggttgaggatgcttttgagacaattagtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
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-------------------------------gttcctagttggctagttcttaacttgctatcctggaattggctactgtttgtctttacatactttgggttgtgt-aatcctaaactgttaacatgtgatatgatacttct-tagGTGGCACGAGATGAAGACCTTGCAGAGCAGATTGGAAAGGATATATATTTTGATCTTGTAGACCATGACAAAGTGAGGAGTTTCCGTGTCCAAAAACAGA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA14G04890.1 (Glycine max), 3'ss of exon 14
gttactagttctaatttttcttctattgacaattgctttttgaaca--tatttagtccctattc-atggttgaggatgcttttgagacaattagtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
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-------------------------------gttcctagttggctagttcctaacttgctatcctagaattgagtac---tttgtgtccttacatagatgctgtgggttgcttaataccaaactgttaac-atgtgatacttct-tagGTGGCACGAGATGAAGACCTTGCAGAGCAGATTGGAAAGGATATATATTTTGATCTTGTAGACCATGACAAAGTGAGGAGTTTCCGTGTTCAAAAACAGA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA20G11330.1 (Glycine max), 3'ss of exon 6
gttactagttctaatttttcttctattgacaattgctttttgaacatatttagtccctattcatggttgaggatgcttttgagacaattagtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
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gttcttagttttggatcttgatttcttaaagaat--caattgaatattgtttgtcttgcagttttacctaggttg----tga---atttagcaatcaaatcatgtttgttatcactgatagcatgatattct----------tagGTGGCAAGAGATGAAGAACTTAAAGAGCAGATTGGAAAGGATATATACTTTGATCTTGTAGACCATGACAAAGTGAGAAGTTTCAGAGTCCAAAAGCAGA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 3'ss of exon 14
gttactagttctaatttttcttctattgacaattgctttttgaacatatttagtccctattcatggttgaggatgcttttgagacaattagtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
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---------------------------------------------------gtaaacaattaactgtatggtttattttttgg-----ttgtaggaagccgtagcttcagag---taattaattattcgtttacgttatgtatagGTTGGGCGCGATGAAGATCTCCAGAACCAGATTGGAAAGGACATTCATTTTGATTTGGTGGATCATGAGAAAGTTCGCAGTTTTCGCATCCAGAAGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
cttctat CT-rich tract
tttattgaacaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttactagttctaatttttcttctattgacaattgctttttgaacatatttagtccctattcatggttgaggatgcttttgagacaattagtctccagtctgagttgagcagactttattgaacaattatttgaagcttctatagGTTGCACGAGATGATGACCTTGTAGAACATATTGGAAGGGATATATATTTTGATCTTGTGGATCATGACAAAGTTAGAAGTTTTCGTATCCAGAAGCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC