Sequence
atgc intronic sequence ATGC exonic sequence...aatatcctactcatgcactggaacagacttgttctgaattactgggtcaggaattgtcttttttaaccattgtttttttttttattattaccatggccagTTGGTTCGGAACTTTAGAGGACCTCTTCTAAAGTTACTGCAATCAGGGGATATAGATCTTTGCTTTGCCAATGAGGATGAAACAAGAGAGCTGTTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g07610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g01620.1 (Oryza sativa), 3'ss of exon 5
aatatcctactcatgcactggaacagacttgttctgaattactgggtcaggaattgtcttttttaaccattgtttttttttttattattaccatggccagTTGGTTCGGAACTTTAGAGGACCTCTTCTAAAGTTACTGCAATCAGGGGATATAGATCTTTGCTTTGCCAATGAGGATGAAACAAGAGAGCTGTTAAG
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----------------gtctgaccgcagctcattggtaccgtaaggtct----ttttttggtacaggcaccagtctgattttgtttatttat-tacacagATGGTTCGTGACTATAGGACACAACTCATTGACCTTTTGGAAACTGGCAACATTGACCTTTGCTTTGCCAATGAGGATGAAGCTAGAGAGCTTCTAGG
upper sequence: Vv06s0004g07610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G37040.1 (Glycine max), 3'ss of exon 5
aatatcctactcatgcactggaacagacttgttctgaattactgggtcaggaattgtcttttttaaccatt-gtttttttttttattattaccatggccagTTGGTTCGGAACTTTAGAGGACCTCTTCTAAAGTTACTGCAATCAGGGGATATAGATCTTTGCTTTGCCAATGAGGATGAAACAAGAGAGCTGTTAAG-
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aagtaccaatatagatgcaaaaatggaaatttttcg--ttttctacacatcagttatgtaaattatgtactagtctgatatggtctctttattttggcaagaTGGTTAGGAATTTTAAACAACCACTTCTGAAGCTACTGGAGTCTGGGAATATAGACCTTTGCTTTGCCAATGAGGATGAGGCAACAGAGCTTCTAAGG
upper sequence: Vv06s0004g07610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G07980.1 (Glycine max), 3'ss of exon 6
----aatatcctactcatgcactggaacagacttgttctgaattactgggtcaggaattgtcttttttaaccattgtttttttttttattattaccatggccagTTGGTTCGGAACTTTAGAGGACCTCTTCTAAAGTTACTGCAATCAGGGGATATAGATCTTTGCTTTGCCAATGAGGATGAAACAAGAGAGCTGTTAAG
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gggaaattttcttcttctacacagcagttgatat---ttggataattgcatcagttatgtaaattatgtactagtctgatatggttc-ttcttattttggcaagATGGTTAGGAATTTCAAACAACCACTTCTGAAGCTACTGGAGTCTGGGAATATAGACCTTTGCTTTGCCAATGAGGATGAGGCAACAGAGCTTCTACG
upper sequence: Vv06s0004g07610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G03290.1 (Glycine max), 3'ss of exon 5
-------aatatcctactcatgcactggaacag--acttgttctgaattactgggtcagg--aattgtcttttttaaccattgtttttttttttattattaccatggccagTTGGTTCGGAACTTTAGAGGACCTCTTCTAAAGTTACTGCAATCAGGGGATATAGATCTTTGCTTTGCCAATGAGGATGAAACAAGAGAGCTGTTAAG
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atataggattatggaagttttatttttaagaagtcacttgtg-taatttatttagttattctatttgtatttctcactcatgatctcttcattt----------tggcaagATGGTGAGGAACTTTAAACTACCGCTTCTCAAGCTACTGGAATCTGGGAACATAGACCTCTGCTTTGCCAATGAGGATGAAGCAGCTGAACTTTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcaggaattgtcttttttaaccattgtttttttttttattattaccatggccagTTGGTTCGGAACTTTAGAGGACCTCTTCTAAAGTTACTGCAATCAGGGGATATAGATCTTTGCTTTGCCAATGAGGATGAAACAAGAGAGCTGTTAAG
ttttaac putative branch site (score: 2)
aattgtcttttttaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatatcctactcatgcactggaacagacttgttctgaattactgggtcaggaattgtcttttttaaccattgtttttttttttattattaccatggccagTTGGTTCGGAACTTTAGAGGACCTCTTCTAAAGTTACTGCAATCAGGGGATATAGATCTTTGCTTTGCCAATGAGGATGAAACAAGAGAGCTGTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - -ctcatgc
- - - - - - - - - - gaacaga
- - - - - - - - - - - - - - - - - - - ttactgg