Sequence
atgc intronic sequence ATGC exonic sequence...ttcactaatttgcagattactactttatgttgtttcttttcttctgtcattagaaatgaagtttgttacagttcattaaattgtttgacatggtaggaagGTTCAAGGCCACTGATGCGGGTAGATTGAGAGCAGAATACAACAGGCTTGTTGAGGGTTTGGCCCAGAGGGGAAACTTACCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 3'ss of exon 1
-----------------------------------------------------ttcactaatttgcagattactactttatgttgtttc------ttttcttctgtcattagaaat-gaagtttgttacagttcattaaattgtttgacatggtaggaagGTTCAAGGCCACTGATGCGGGTAGATTGAGAGCAGAATACAACAGGCTTGTTGAGGGTTTGGCCCAGAGGGGAAACTTACCTA
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gtacctggtgttgaagaagcttgcagctactaatatgcataaaaaaacatgaattctttgtttccaggattgcttttatgatttccttaagagcatccaactttgtgataaatagttgaagcttgctt--gctcactaa-ttgccttatctgggaggaagGTTCAAGGCCACTGATGCCAATAGGCTTCGTGCTGAATACAACAGGCTGGTTGATGGATTGGCACAGAGGGGAAACCTGCCAA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G09080.1 (Glycine max), 3'ss of exon 2
ttcactaatttgcagattactact-ttatgttgtttcttttcttctgtcattagaaatgaagtttgttacag-ttcattaaattgt------ttgacatggtaggaagGTTCAAGGCCACTGATGCGGGTAGATTGAGAGCAGAATACAACAGGCTTGTTGAGGGTTTGGCCCAGAGGGGAAACTTACCTA
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--------cctgtgcaatagtgccattattgctttattttccatttgtacccatagctgaaatttgattcagattctcttaactatcggaatttgaactggtaggaagGTTCAAGGCCACTGATGCAGGTAGACTCCGTGCTGAATACAACAGGCTTGTTGAAGGTTTGGCACTAAGAGGAGACCTGCCTG
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G28290.1 (Glycine max), 3'ss of exon 2
ttcactaatttgcagattactactttatgttgtttcttttct-tctgtcattagaaatgaagtttgttacag-ttcattaaattgt------ttgacatggtaggaagGTTCAAGGCCACTGATGCGGGTAGATTGAGAGCAGAATACAACAGGCTTGTTGAGGGTTTGGCCCAGAGGGGAAACTTACCTA
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--------cctgtgcaatagtgccataattgctttattttccatttgtatccatagctgaaatttgattcagattctcttaactatcggaatttgaactggtaggaagGTTCAAGGCCACTGATGCAGGTAGACTCCGTGCTGAATACAACAGGCTTGTCGAAGGTTTGGCACTAAGAGGAGACCTGCCTG
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G03190.2 (Arabidopsis thaliana), 3'ss of exon 2
ttcactaatttgcagatt-actactttatgttgtttc-ttttcttctgtcattagaaatgaagtttgttacagttcatt-aaattgtttgacatggtaggaagGTTCAAGGCCACTGATGCGGGTAGATTGAGAGCAGAATACAACAGGCTTGTTGAGGGTTTGGCCCAGAGGGGAAACTTACCTA
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--cataattttcttggttcaatacaggaagtgacctggttatttgctgatgcttatttttaagttcttattacattattgaaattgtccaac-tggtaggaagGTTCAAGGCTACTGATGCAGGAAGATTGCGAGCTGAATACAACCGGCTGGTTGAGGGTTTAGCACTGAGAGGGGACTTATCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcattagaaatgaagtttgttacagttcattaaattgtttgacatggtaggaagGTTCAAGGCCACTGATGCGGGTAGATTGAGAGCAGAATACAACAGGCTTGTTGAGGGTTTGGCCCAGAGGGGAAACTTACCTA
gtttgac putative branch site (score: 4)
ttcattaaattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcactaatttgcagattactactttatgttgtttcttttcttctgtcattagaaatgaagtttgttacagttcattaaattgtttgacatggtaggaagGTTCAAGGCCACTGATGCGGGTAGATTGAGAGCAGAATACAACAGGCTTGTTGAGGGTTTGGCCCAGAGGGGAAACTTACCTA
- - - - - tgcagat
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaa