Sequence
atgc intronic sequence ATGC exonic sequencegtatgcacattccttttctagtatgatgtttgattttcatgacccattccatctgcacttctaattgctggtgcaaggactaaccttatttctttaatcatgctacctttattgcttctgaaaacacagGCAACTTTTAATCAGAGCATGGGAGCTAATGTATTTATGTGCTTCCTCCATGCCTCCTAGCAAGGACATTGGTGGATATTTATCAGAGTATGTCCACAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g57140.1 (Oryza sativa), 3'ss of exon 3
gtatgcacattccttttctagtatgatgtttgattttcatgacccattccatctgcacttctaattgctggtgcaaggactaaccttatttc-tttaatcatgctacctttattgct-tctgaaaacacagGCAACTTTTAATCAGAGCATGGGAGCTAATGTATTTATGTGCTTCCTCCATGCCTCCTAGCAAGGACATTGGTGGATATTTATCAGAGTATGTCCACAAT
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----------------------------------------------------gtatgaagcagatttctcatggatag--caattcgatgggatacaaccatcttatgaatgttattatttgtacttacagGGCTTGGTTAATAAGAGCTTGGGAGCTTATGTATTTATGTGCGTCATCCATGCCACCAAGCAAAGATATTGGAGCATACTTGTCTGAGTATGTTCACTAC
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 4
gtatgcacattccttttctagtatgatgtttgattttcatgacccattccatctgcacttctaattgctggtgcaaggactaaccttatttctttaatcatg-ctacctttattgcttctgaaaacacagGCAACTTTTAATCAGAGCATGGGAGCTAATGTATTTATGTGCTTCCTCCATGCCTCCTAGCAAGGACATTGGTGGATATTTATCAGAGTATGTCCACAAT
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gtatctaagtttcttcagtagtgtg-tgtcacactt-catg------ttttcttggactttgtattgaagctg-aatatttgctgtggtttgcatgctagtgattaatactgttttggtctgaaaagcagGGAATACTTGATTAAAGCATGGGAGCTAATGTATTTATGTGCTTCATCCATGCCTCCTAGCAAAGACATTGGAGCTTATCTATCAGAGTATGTTCATAAT
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 5
gtatgcacattccttttctagtatgatgtttgattttcatgacccattccatctgcacttctaattgctggtgcaaggactaaccttatttctttaatcatg-ctacctttattgcttctgaaaacacagGCAACTTTTAATCAGAGCATGGGAGCTAATGTATTTATGTGCTTCCTCCATGCCTCCTAGCAAGGACATTGGTGGATATTTATCAGAGTATGTCCACAAT
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gtatctaagtttcttcagtagtgtg----tcacgcttcatgttttcttggactt----tgttcattgaaactg-aatatttgctgtggtttgcatgctagtgattaatactgttttggtctaaaaagcagGGAATACTTGATTAAAGCATGGGAACTAATGTATTTATGTGCTTCATCCATGCCTCCTAGCAAAGACATTGGAGCATATCTATCAGAATATGTTCACAAT
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 5
gtatgcacattccttttctagtatgatgtttgat-tttcatgacccattccatctgcactt-ctaattgctggtgcaaggactaaccttatttctttaatcatgctacctttattgcttctgaaaacacagGCAACTTTTAATCAGAGCATGGGAGCTAATGTATTTATGTGCTTCCTCCATGCCTCCTAGCAAGGACATTGGTGGATATTTATCAGAGTATGTCCACAAT
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gtatgcaacatttagattcagtattgagtgtcatgcttcat--cttttttggcctttattcattattcattgaagctatatcaactgtggtttttgcactagtgattaatatgt-gtctctcaaaa-atagGCAATACTTGATTAAAGCATGGGAGCTCATGTATTTGTGTGCATCCTCAATGTCTCCTAGTAAAGACATTAGCAGTTATCTATCAGAATACATTCATAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaggactaaccttatttctttaatcatgctacctttattgcttctgaaaacacagGCAACTTTTAATCAGAGCATGGGAGCTAATGTATTTATGTGCTTCCTCCATGCCTCCTAGCAAGGACATTGGTGGATATTTATCAGAGTATGTCCACAAT
ttatttctttaatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcacattccttttctagtatgatgtttgattttcatgacccattccatctgcacttctaattgctggtgcaaggactaaccttatttctttaatcatgctacctttattgcttctgaaaacacagGCAACTTTTAATCAGAGCATGGGAGCTAATGTATTTATGTGCTTCCTCCATGCCTCCTAGCAAGGACATTGGTGGATATTTATCAGAGTATGTCCACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA