Sequence
atgc intronic sequence ATGC exonic sequence...ggtactcttaaggttttttgtttccttttaatttcccacttttctttatttatttatttttatttcatttaaaaaaaaattcttgtgcaacttttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0015g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g11660.1 (Oryza sativa), 3'ss of exon 3
ggtactcttaaggtttttt--gtttccttttaat-ttcccacttttctttatttatttatttttatttcatttaaaaaaaaattcttgtgcaact--tttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT
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-----tgttaagattgttccaaagtacaaacagtatttcaacatcagaaagcctgtaattgcttatgctcctgtatgtttagttttactaaaactcttttcacagTCTCAAATAATCGAGGCGCTCGGGGCTACAGTTGAACGAGTGCGCCCTGTTTCAATTACACATAGGGACCATTTTGTCAATATTGCTAGAAGAAGGGCTT
upper sequence: Vv19s0015g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G01780.2 (Glycine max), 3'ss of exon 3
ggtactct-taaggttttttgttt---ccttttaatttcccacttttctttatttatttattttta---tttcatttaaaa--aaaaatt--cttgtgcaactt--ttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT
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-gtattttataatggttttaatgtaatcatgtaaattctgttatgaaatctagccataaacctctaagattttgtgtacaattgatgattggcttgcgtgaatcaaccttcagTCTCAAATACTTGAAGCCCTTGGGGCAACTGTTGAAAGAGTGAGACCGGTGTCCATCACCCACAAAGACCATTTTGTCAATATTGCAAGAAGACGGGCAT
upper sequence: Vv19s0015g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G46950.1 (Glycine max), 3'ss of exon 5
ggtactcttaaggttttttg--tttccttttaatttcccacttttctttatttattta---tttttatttcatttaaaaaaaaattcttgtgcaacttttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT---------------------------------------
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-gtattttataatcaagcaaactctattgtgaaattaatatagccataaatctctctaagatttgtatgtgatttatgattgtcttgt-gttaaccaaccttcagtctcaaatacttgaagcccttggggcaactgttgaaagAGTGAGACCGGTGTCCATTACCCACAAAGACCATTTTGTCAA-ATCGCAAGAAGACGGGCATCTGAAGCAAATGAGTTTGCATTGAAGCGTACAAATTCAC
upper sequence: Vv19s0015g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G55880.1 (Arabidopsis thaliana), 3'ss of exon 3
ggtactcttaaggttttttgtttccttt-taatttcccacttttctttatttat-ttatttttatttcatttaaaaaaaaattcttgtgcaacttttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT
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------gttatatcttttaaataccttgatgatgattcaaattcccttgtatgcattattgtacatacactcaaatttgtat-cgtgttggacttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTGTCAATAACTCACAAGGATCACTATGTCAACATTGCGAGGCGACGGGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttatttatttttatttcatttaaaaaaaaattcttgtgcaacttttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT
cttttctc CT-rich tract
tatttatttttatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtactcttaaggttttttgtttccttttaatttcccacttttctttatttatttatttttatttcatttaaaaaaaaattcttgtgcaacttttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - tgtttcc
- - - - - - - - - - - - - - - - ttcccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgtgc