Sequence
atgc intronic sequence ATGC exonic sequence...acgatgctgaaggttataatgacttaaaataacaagttttaatgttgagaagtttctgctataatgacttacgtatgttgatttaaatctcaattttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G016106_T01 (Zea mays), 3'ss of exon 3
acgatgctgaaggttataatgacttaaaataacaagttttaatgttgagaagtttctgctataatgac--ttacgtatgttgatttaaatctcaatt--ttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
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---gtttgtatctctaatatgctctgcagattcagttgctgccacttatgtgcatgtttca-gttgactgttccccttgttacttttggacaaacttctttcagGAAAGTATGTTGGGAATCGCCCTATTAAATTGCGTAAGAGTAACTGGAAGGAGAGGACAGATGTTGAGGCTCTGCAAAGACAAAAG
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G068255_T01 (Zea mays), 3'ss of exon 3
----acgatgctga-aggttataatgacttaa--aataacaagtt-ttaatgttgagaagtttctgctataatgacttacgtatgttgatttaaatctcaat-tttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
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gtttgtatctctaatatgttctgcagattcagttgctggcttgctgctacttatgtgcatattttggttgagtg-ttcaccttgttacttttgaacaacattctttcagGAAAGTATGTTGGGAACCGCCCTATTAAATTGCGTAAGAGTAACTGGAAGGAGAGGACAGATGTTGAGGCTCTGGAAAGACAAAAG
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G01300.1 (Glycine max), 3'ss of exon 4
---acgatgctgaaggttataatgacttaa-aataacaagttttaatgttgagaagtttctgctataatgacttacgtatgttgatttaaatctca-attttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
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tggcttatccaatttgtctctgaatcttgtcaatgtaaggagacaatattgtgg-----ccaatgcaatcaaatatgtatcctgactatgatgtcttggtttcagGAAAGTATGTTGGAAATCGGCCGATAAAACTACGCAAGAGTAAGTGGAAGGAGAGGACAGATTATGAAGCACTGGAAAAACAGAAG
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G36570.1 (Glycine max), 3'ss of exon 4
acgatgctgaaggttataa-tgacttaaaataacaagttttaatgttgaga-agtttctgctataatgacttacgtatgttgatttaaatctcaattttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
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--gcttatataatttgtcactgaatcttgtcaacatatgcagcagacaatatagtagaaaatgctgtaaaatgtgtattttgtctttgactcttgatttcagGTAAGTATGTTGGAAATCGTCCTATAAAACTACGCAAGAGTAAGTGGAGGGAGAGGACAGATTATGAAGCACTGGAGAAACAGAAG
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G30900.2 (Glycine max), 3'ss of exon 4
acgatgctgaaggttataatgacttaaaataacaagttttaatgttgagaa-gtttctg----ctataatgacttacgtatgttgatttaaatctca-attttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
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----ggcttatccaatttgtcactgaatattgtcaacat--atgcagaaaatatttgtagaaaatgcagtaaattgtgtattttgactttgatgtcttgatttcagGTAAGTATGTTGGAAACCGTCCTATAAAACTACGCAAGAGTAAGTGGAGGGAGAGGACAGATTATGAAGCACTGGAGAAACAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagaagtttctgctataatgacttacgtatgttgatttaaatctcaattttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
ttttc CT-rich tract
atttaaatctcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgatgctgaaggttataatgacttaaaataacaagttttaatgttgagaagtttctgctataatgacttacgtatgttgatttaaatctcaattttcagGAAAATATGTTGGAAATAGGCCAATCAAACTACGTAAGAGCAATTGGAGGGAGAGGACAGATTTTGAAGCCTTGGAAAGACAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- gatgctg
- - - - - - - - - - - - -aaaataa