Sequence
atgc intronic sequence ATGC exonic sequencegtatgcacttggactatagttatttccattgatacctttactttcatattaatattctggttctcattcccgtccactctggaactttcagTATCAATGCTATGCACCCGAAGACGAGAAAGATTTTGCAGCTCTTGCGTTTGAGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s2761g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 2
----gtatgcacttggactata--gttat--ttccattga-tacctttactttcatattaatattctggttctcattcccgtccactctggaactttcagTATCAATGCTATGCACCCGAAGACGAGAAAGATTTTGCAGCTCTTGCGTTTGAGACAG
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gtaaggaaccacttaagttgtattgttataatgtcactgactatagatgatgatctggttgtatgttgatgctaatgtta--caaatctgttgactgtagTATCAATGCCATGCACCCGAAGACCAGGAAGATTTTGCAGCTCTTGCGTTTGAGGCAG
upper sequence: Vv00s2761g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G178807_T03 (Zea mays), 3'ss of exon 3
gtatgcacttggactatagttat-ttccattgatacctttactttcatattaatattctggttctcattcccgtccactctggaactttcagTATCAATGCTATGCACCCGAAGACGAGAAAGATTTTGCAGCTCTTGCGTTTGAGACAG------------------------------------------
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-------------gtatggctctgtcccaatggttgct--gattcagttgctatgctcaagtgttgactgttgtcaaatgtgctgtgt--agTATCAATGCCATGCACCCCAAGACCCGCAAGATCTTGCAGCTCCTGCGTTTGAGGCAGATCTTCAATGGTGTCTTTCTCAAGGTTAACAAGGCAACTATT
upper sequence: Vv00s2761g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 3
gtatgcacttggactatagttatttccattgatacctttactttcatattaatattctggttctcattcccgtccactctggaactttcagTATCAATGCTATGCACCCGAAGACGAGAAAGATTTTGCAGCTCTTGCGTTTGAGACAG
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--------gtgagtcgcaagtgcttatgccagtat-tatgtagaggaatttgtatgattatgcttgtttttaattccgttgaaacta-cagTATCAATGCCATGCATCCTAAGACCAGGAAGATATTGCAGCTTCTGCGTTTGAGGCAG
upper sequence: Vv00s2761g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgcacttggactatagttatttccattgatacctttactttca-tattaatattctggttctcattcccgtccactctggaactttcagTATCAATGCTATGCACCCGAAGACGAGAAAGATTTTGCAGCTCTTGCGTTTGAGACAG
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gtatgttatactgttgttgtttgtcttataagcatttctaaagccagtgtctatgttgttgttcttatctgttgttctttttaatattgcagTATCAATGCCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttactttcatattaatattctggttctcattcccgtccactctggaactttcagTATCAATGCTATGCACCCGAAGACGAGAAAGATTTTGCAGCTCTTGCGTTTGAGACAG
tattaat putative branch site (score: 2)
ctttc putative PPT
tttcatattaatattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcacttggactatagttatttccattgatacctttactttcatattaatattctggttctcattcccgtccactctggaactttcagTATCAATGCTATGCACCCGAAGACGAGAAAGATTTTGCAGCTCTTGCGTTTGAGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC