Sequence
atgc intronic sequence ATGC exonic sequence...catcattataatcctttttggtttacattggcttgatattgtttcagtgatttcatatttatttggaatcttagtaaatattttgtttgtttatggacagAAATGGAGGACCTCACAATTCGCCTTTGTTGGGAACTTGTAAAGAAGGAGGGATATATTGCCATATGGAGAAAGCCTTTAAACAACAGTTGTTATCTTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G042295_T01 (Zea mays), 3'ss of exon 4
catcattataatcctt--tttggtttacattggcttgatattgtttcagtgatttcatatttatttggaatcttagtaaatattttgtttgtttatggacagAAATGGAGGACCTCACAATTCGCCTTTGTTGGGAACTTGTAAAGAAGGAGGGATATATTGCCATATGGAGAAAGCCTTTAAACAACAGTTGTTATCTTAA
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gattttttgcatcatcagtttgatatgcttacattcaatgacttgctgtttttgttttgtttgtcctgaaact--atcgcttatgtataaaatcatgtgtagAGATGGAGGACCTCACTACCCGACTTTGTTGGGAGCTTGTGAAGAAAGAGGGATATATTGCTATGTGGAGGAAACCCTTAAATAACTCTTGCTACATGAA
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G09520.1 (Glycine max), 3'ss of exon 4
catcatta-taatcctttttggtttacattggcttgatattgtttcagtgatttcatatttatttggaatcttagtaaatattttgtttgtttatggacagAAATGGAGGACCTCACAATTCGCCTTTGTTGGGAACTTGTAAAGAAGGAGGGATATATTGCCATATGGAGAAAGCCTTTAAACAACAGTTGTTATCTTAA
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tgtgatcaatactccaacttcatatggtatcaaaggacctagatcttgagatgagatatttagtttaaagtttaaaccccatgatctttggactta-acagAAATGGAGAACCTGACAGCTAGCATTTGTTGGGAACTTGTACGAAAGGAGGGCTATATTGCTATATGGCGGAAACCTTTGGACAATAGCTGCTACCTTGG
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------------------------------------------------catcattataatcctttttggt-ttacattggcttgatattgtttcagtgatttca-tatttatttggaatcttagtaaatattttgtttgtttatggacagAAATGGAGGACCTCACAATTCGCCTTTGTTGGGAACTTGTAAAGAAGGAGGGATATATTGCCATATGGAGAAAGCCTTTAAACAACAGTTGTTATCTTAA
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gtagctcatattttctgtgttcaccataacaatagtgtacatctttcagtgggttgatacttaggggtctactattttctcccttcattctttgtgatcaacactccaacttcatatggtatcaaatgacctagaccttcatatattgagatgagtatttagtttaaagtttaaacccattgatatttgaactta-acagAAATGGAGAACCTGACAGCTAGCATTTGTTGGGAACTTGTACGAAAGGAGGGCTATATTGCTATATGGCGGAAACCTATGGACAATAGCTGCTACCTTAG
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 4
catcattataatcctttttggtttacattggcttgatattgtttcagtgatttcatatttatttggaatcttagtaaatattttgtttgtttatggacagAAATGGAGGACCTCACAATTCGCCTTTGTTGGGAACTTGTAAAGAAGGAGGGATATATTGCCATATGGAGAAAGCCTTTAAACAACAGTTGTTATCTTAA
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-gtttgtatattattcaacaaaata-atttgtctgctatgg-------agtttaactaaaatatgggtgttgcttctgcgctttgattatcttttt-cagAAATGTTAGACCTTACGAATCGAATCTGTTGGGAGCTTATCAAGAAAGAGGGATATATTGCTGTGTGGAGGAAGCCTCTAAACAACAGCTGCTATGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgatttcatatttatttggaatcttagtaaatattttgtttgtttatggacagAAATGGAGGACCTCACAATTCGCCTTTGTTGGGAACTTGTAAAGAAGGAGGGATATATTGCCATATGGAGAAAGCCTTTAAACAACAGTTGTTATCTTAA
tttgttt CT-rich tract
tttcatatttatttgg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcattataatcctttttggtttacattggcttgatattgtttcagtgatttcatatttatttggaatcttagtaaatattttgtttgtttatggacagAAATGGAGGACCTCACAATTCGCCTTTGTTGGGAACTTGTAAAGAAGGAGGGATATATTGCCATATGGAGAAAGCCTTTAAACAACAGTTGTTATCTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - tggcttg