Sequence
atgc intronic sequence ATGC exonic sequence...ttttattttagtcttttgacaagtttatgaaacttaaaaatttaattgtcatgtgttgtccaaagttcaattttcttattcaaattttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g02050.1 (Oryza sativa), 3'ss of exon 2
ttttattttagtcttttgacaagtttatgaaacttaaaaatttaattgtcatgtgttgtccaaagttcaattttcttattca--aattttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
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---------------------------------gtaatcatttgtttatgcagttatttgctagttcaaactgtgcaaattactaaattgatcatatggcagGTTTTAGAAGATGGTGTCCTTGATCCTGAGACTACTATAGTGTCTATTTTCCCCTCCCCGATGCATTATGCTGGTCCAACAGAAGTGCAATGGCATGCAA
upper sequence: Vv18s0001g14010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G158147_T01 (Zea mays), 3'ss of exon 2
ttttattttagtcttttgacaagtttatgaaacttaaaaatttaattgtcatgtgttgtccaaagttcaattttcttattcaaattttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
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------------------------gtat-acatttgtcgtcttaatcttagctgtttaccggatgtattatgcaaattgctgaagtttatcat-gcacagGTTTTAGAAGATGGAGTGCTTGATCCTGAGACTACTATAGTGTCTATATTTCCCTCACCAATGCATTATGCTGGTCCAACAGAAGTGCAGTGGCATGCAA
upper sequence: Vv18s0001g14010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G06940.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------------ttttatttta---gtcttttgacaagtttatgaaacttaaaaatttaattgtcatgtg-ttgtccaa--agttcaattttcttattcaaa---ttttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
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gtaattcccattgttcttctcaaaaaacatagggtaatcataatgtgcatgtgctacaacaatatatgttcaaaaatgacctcaaaaagtgattgaactgtcattcaatttcagtaatctactcattttgtaattgcacaatccatggaattttatcctataaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATAGTTGCCATATTTCCATCACCTATGCATTATGCTGGTCCAACTGAAGTACAGTGGCATGCAA
upper sequence: Vv18s0001g14010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G05020.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------------------ttttatttt---agtcttttgacaagtttatgaaacttaaaaatttaattgtcatgtg-ttgtccaa--agttcaattttcttattcaaa---ttttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
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gtaattcccattgttcttctcaaaaaacaaagactaatcataatgtgcatgtgctacaacaatagatgttaaaaaaatgaccttgaaaagtgattgaactatcactcaaatttagcaatctactcattttgtaattgcacaatccatggaattttattctaccaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
upper sequence: Vv18s0001g14010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G19920.1 (Arabidopsis thaliana), 3'ss of exon 2
--ttttattttagtcttttgacaagtttatgaaact--taaaaatttaattgtcatgtgttgtccaaagttcaattttcttattcaaattttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
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gtgcatatttgctgttgtttccgagttcgttttcctcataaagaatttgttgtaaagagagatt-atgatttgatttgcttatga------------tgtgtagGTTCTAGAAGATGGAGTTCTTGACCCGAAGACTACTATTGTCTCGATCTTTCCGTCACCGATGCACTATGCTGGTCCAACTGAAGTTCAATGGCACGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtcatgtgttgtccaaagttcaattttcttattcaaattttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
ttttattttt CT-rich tract
aaagttcaattttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttattttagtcttttgacaagtttatgaaacttaaaaatttaattgtcatgtgttgtccaaagttcaattttcttattcaaattttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - taaaaat
- - - - - - - - - - - - - - - - - - - - - - - - -catgtgt