Sequence
atgc intronic sequence ATGC exonic sequence...ctgtattctataggaatgtatcataggtcatttattcatcttatttgatattttgcactttttcactttttaaattaattttattttggacatgttacagGTTTTATACAAGCACAAGATTATTGTTTTTGGTGGCTTCTATGACACTCTCAGAGAAGTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G100815_T01 (Zea mays), 3'ss of exon 3
----ctgtattctataggaatgtatcata-ggtcat-ttattcatcttatttgatattttgc-actttttcactttttaaattaattttattttggacatgttacagGTTTTATACAAGCACAAGATTATTGTTTTTGGTGGCTTCTATGACACTCTCAGAGAAGTAAG
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aggacagacatatattcatttctttcccatgctcatattatacttctatattgccatctagccagtttaagacattctttatttatcttttttt-------ttgcagGTTCTTTACAAGCATAAGATTGTTCTATTTGGTGGCTTTTATGACACTCTTAGGGAAGTGAG
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 6
---ctgtattctataggaatgtatcataggtcatttattcatcttatttgatattttgcactttttcactttttaaattaattttattttggacatgttacagGTTTTATACAAGCACAAGATTATTGTTTTTGGTGGCTTCTATGACACTCTCAGAGAAGTAAG
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cccccccacccccatcatatggataccca--tattaatccagttttttttgtcttcatcatatatttgtttgttctaatg-ctttattttggttaattaacagGTATTGTACAAGCACAAGATTATTCTTTTTGGTGGCTTCTATGACACTCTTAGAGAAGTGAG
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G18170.1 (Glycine max), 3'ss of exon 6
ctgtat-tctataggaatgtatcataggtcatttattca-tcttatttgatattttgcactttttcactttttaaattaattttattttggacatgttacagGTTTTATACAAGCACAAGATTATTGTTTTTGGTGGCTTCTATGACACTCTCAGAGAAGTAAG
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-tgtgtgccccccccaatatcatatggcatattaatccagtttttttttgtcttcatcatatagttgtttgttctaatg-ctttattttggttaattaacagGTATTGTACAAGCACAAGATTATTCTTTTTGGTGGCTTCTATGACACTCTTAGAGAAGTGAG
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G50310.1 (Arabidopsis thaliana), 3'ss of exon 6
ctgtattctataggaatgt-atcataggtcatttattcatcttatttgatattttgcactttttcactttttaaattaattttattttggaca-tgttacagGTTTTATACAAGCACAAGATTATTGTTTTTGGTGGCTTCTATGACACTCTCAGAGAAGTAAG
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gtggagt-tgtactactttcattatcaatctgttcct-gccttcccttttgtaaccaactcatcaagttctcatcctgctctgctataatctactttttcagGTATTATACAAGCACAAGATCATAATTTTTGGTGGCTTCTATGATACTCTACGTGAAGTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatattttgcactttttcactttttaaattaattttattttggacatgttacagGTTTTATACAAGCACAAGATTATTGTTTTTGGTGGCTTCTATGACACTCTCAGAGAAGTAAG
aattaat putative branch site (score: 3)
ttttgcactttttcac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtattctataggaatgtatcataggtcatttattcatcttatttgatattttgcactttttcactttttaaattaattttattttggacatgttacagGTTTTATACAAGCACAAGATTATTGTTTTTGGTGGCTTCTATGACACTCTCAGAGAAGTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - -ataggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaa