Sequence
atgc intronic sequence ATGC exonic sequence...tgcacatttatacgaatgctggcatatgtagtgcatgaatatataaaattcaatacaattcctttgaatgtattgttgatccactctattcttttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 3'ss of exon 1
tgcacatttatacgaatgctggcatatgtagtgcatgaatatataaaattcaat-acaattcctttgaatgtattgttgatccactctattctt---ttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
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----tatgtttgaaattgcttgtgtatttgataactttttattttgattttacttatgttgggtactaagattttagtcaccaaattcattcttttcttttcagCACTTCGTTTTGGAGGAGAACATGTTGGAGGTTGACTGCCCCTGTGTGACGCCTGAGGTTGTGTTGAAGGCATCGGGGCATGTCGAGAAGTTTACTGACC
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM5G821551_T03 (Zea mays), 3'ss of exon 1
tgcacatttatacgaatgctggcatatgtagtgcatgaatatataaaattcaatacaattcctttg--aatgta---ttgttgatccactctattcttttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
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---gaactgactacattttagttatttcttgtagttgag-attcatcatgttgtacttttcctttgctaagataagattactgatatatttaatt-tctctccagCACTTTGTTTTGGAAGAGAACATGTTGGAGGTTGACTGCCCCTGTGTGACGCCTGAGGTTGTCTTGAAGGCATCAGGCCATGTTGAGAAGTTTACTGACC
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G041797_T01 (Zea mays), 3'ss of exon 1
-tgcacatttatacgaatgctggcatatgtagtgcatgaatatataaaattcaatacaattcctttgaatgtattgttgatccactctattcttttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
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gtgttgtgatttgctagttttgttatttcttgtggttgatgattcatcatgttctactttttctttgctaaggttactgatattcttaatt-tctccccagCACTTTGTTTTGGAAGAGAATATGTTGGAGGTTGACTGCCCCTGTGTGACGCCTGAGGTTGTCTTGAAGGCATCGGGCCATGTCGAGAAGTTTACTGACC
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G171688_T01 (Zea mays), 3'ss of exon 1
tgcacatttatacgaatgctggcatatgtagtgcatgaatatataaaattcaatacaattcctttgaatgtattgttg------atccactctattcttttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
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-----aaagttaccagtgcctgcatgtattagctat-actgtcttcagtgcatcatgagagtatactatagatcactgcttactatctactcaactcctttattagCATTTTGTATTGGAGGAAGGGATGCTTGAGGTTGACTGTCCATGTGTGACGCCAGAAGTTGTCTTGAAAGCCTCTGGACATGTTGATAAATTTACAGACT
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G29880.1 (Arabidopsis thaliana), 3'ss of exon 1
-------tgcacatttatacgaatgctggcatatgtagtgcatgaatatataaaattcaatacaattcctttgaatgtattgttgatccactctattcttttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
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ggaattatacagattgatgtgggtcaaatttgacatgattcataga-gtagaaattgtgttaggcttgttctta-tacgggagtgatttgcttcgtt-----tgcagCATTTCATTCTTGAGGAGAACATGCTAGAAGTTGATTGTCCATGTGTGACACCAGAGGTTGTTCTCAAGGCATCTGGGCATGTAGATAAGTTCACTGATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattcaatacaattcctttgaatgtattgttgatccactctattcttttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
tgttgat putative branch site (score: 4)
tccactctattctttt CT-rich tract
tattctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcacatttatacgaatgctggcatatgtagtgcatgaatatataaaattcaatacaattcctttgaatgtattgttgatccactctattcttttttcagCATTTTGTTCTTGAGGAGAACATGTTGGAAGTTGACTGCCCTTGTGTAACGCCTGAAGTTGTTCTGAAGGCTTCAGGGCATGTTGATAAATTTACCGACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - -gctggca
- - - - - - - - - - - - - - - - gcatgaa
- - - - - - - - - - - - - - - - - - - - - ataaaat
- - - - - - - - - - - - - - - - - - - - - - - - - -aatacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccactc