Sequence
atgc intronic sequence ATGC exonic sequencegtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgcattacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g07570.1 (Oryza sativa), 3'ss of exon 5
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgcattacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttat-----cagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
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----------------------------------------------------------------------------------------------gtcttcacccaacacac-atacatttgaatggaccttggaaaaataagcctca-aaggtttaattttgttgccattatttattgctgatgttttttttttgtttgtagGGAATTGGAAATGGTCTACCATTGGGGGCAGTTGTAACAACACCCGAGATTGCAAATGTGCTGGCGCAAAAAATCCAATTTAACACATTTGGTGGAAACC
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G124353_T01 (Zea mays), 3'ss of exon 5
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctag-atgcatta--caactttcatttcagtttattatttcatgtcttgtaa-aatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
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-----------------------------------------------------------------------------gtctatctcctact--ctaaaatgcaagcatgtactaatcaaccctgggggaaatgtcttctgtttttttttgtggcaacatctttccatactgatgtgacaatttgttccccctggtt-tcagGGAATTGGCAATGGCCTACCATTGGGGGCAGTTGTGACAACTCCTGAGATTGCAAGTGTGTTAGCTCAAAAAATCCAATTTAACACATTTGGTGGAAATC
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G14850.2 (Glycine max), 3'ss of exon 5
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgc-attacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
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----------------------------------------------------------------------------------------------ttttctgccatattttattatggaatttattttg--ttctcactttttaacct-tcatatattctgctgctatttcatcatatctcatgt-taatttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G36000.3 (Glycine max), 3'ss of exon 5
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgcattacaactttcatttcagt-ttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
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-------------------------------------------------------------------------------------------agcattaccttcagatagg--accaattttttttaagtgcctctcatgtaccttttctagaattccattgtatgatt----tgtacctcatgt-taatatgcatcagGGTATTGGCAATGGTTTGCCATTAGCAGCTGTAGTTACAACTCCAGAAATAGCGAGTGTGATGGCTCAAAAGCTTCAATTTAATACTTTTGGAGGGAACC
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G02440.1 (Glycine max), 3'ss of exon 6
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgcattacaactttcatttcagt-ttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
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-------------------------------------------------------------------------------------------agcattaccttcagatagg--gccaattttgttgaagtgcctctcatgtaccttttctagaattccattgtatgatt----tgtacctcatgt-taacatgcatcagGGTATTGGCAATGGTTTGCCATTAGCAGCTGTAGTTACAACTCCAGAAATAGCAAGCGTGATGGCCCAGAAGCTTCAATTTAATACTTTTGGAGAGAACC
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G31630.1 (Glycine max), 3'ss of exon 5
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatg-cattacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
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----------------------------------------------------------------------------------------------ttttctgccatatttcattgtggaaattattttgttctaactttttaaccttcata---tcttctgctgctatttcatcatatctc-gtgttaatttgtatcagGGTATTGGCAATGGTCTGCCATTGGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGATGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcat-ttctttcttggtaacttgttttctag-atgcattacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
||| | | || | || | | ||| | | ||| | | ||| | || || | ||||| | || || | ||| || | || | | | | | || | | ||| | ||||| ||||| ||||| || ||||||||||| |||||||| ||||||||||| ||| ||| || ||| || |||| || |||||||| ||||||||||
----------------------------------------------------gtttgtcaaaagaagttgttaccacttgctctgttcttacttcttaccatatgctatgttctccattctttgactacgtttactgttatatacttaaagaaacatgtgtagttcact--aataattgacaccggttatattca-cagGGAATTGGAAATGGATTGCCATTAGGAGCTGTGGTGACTACACCAGAAATCGCAAGTGTTTTAGCTAGCAAGATTCTGTTCAACACTTTTGGTGGGAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
aaataac putative branch site (score: 2)
aatttcagaaataaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgcattacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG