Sequence
atgc intronic sequence ATGC exonic sequence...tgttgcatcctctattatttctgccttttgatttgatataatggtaattataggtatacttcaaaaatgcttcttgctacaattgatgaacaccattgagGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 11
-----------------------------------------------tgttgcatcctctattatttctgccttttgatttgatataatggtaattataggtatacttcaaaaatgcttcttgctacaattgatgaacaccattgagGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAA
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gtatgtgtaacaactgttaatttaggttcatttttttttcttgcctttgccttcttttctgtcattttcatgtatt--tctaattgacttgggattccagGTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAG
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 1
-------------------------------------tgttgcatcctc-tattatttctgcc-ttttgatttgatataatggtaattataggtatacttcaaaaatgcttcttgctacaattgatgaacaccattgagGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAA
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gtatgttttgagatcactcagttttatgctacatttatgttctgtctcaataaaatttcttttgttctggttggctcttttgg--gtttcagGTATACCTCCAAGATGCTCTTGGCTGCTATTGATGAAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G28860.1 (Glycine max), 3'ss of exon 3
----------------------------------------------tgttgcatcctctatt---atttctgccttttgatttgatataatggtaattataggtatacttcaaaaatgcttcttgctacaattgatgaacaccattgagGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAA
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agttttttctgaaaatgaagaattatgttcagttctacacctcatttacataattttttcttgaaacatctttttctgggactgatttgttgtc--ttgcagGTATACATCCAAGATGCTGTTAGCTGCAATTGATGAACGCCATAGAGGAACTTATGATTTTGTTTATCTGCCAATTGATTTCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattataggtatacttcaaaaatgcttcttgctacaattgatgaacaccattgagGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAA
aattgat putative branch site (score: 4)
tatacttcaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttgcatcctctattatttctgccttttgatttgatataatggtaattataggtatacttcaaaaatgcttcttgctacaattgatgaacaccattgagGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAA
- - -catcctc
- - - - - - - - - -tctgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaaat