Sequence
atgc intronic sequence ATGC exonic sequence...taaccagtagacattttcctggttgtattgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattggttggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g04050.1 (Oryza sativa), 3'ss of exon 3
taaccagtagacattttcctggttgtattgaaataaaactatct----ggagaccaattagtagtaatagcaacaagtgg-taacttattggttggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
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-----aaatcgctttcccatgatgttgttcacatgaacctctccttcacatggttatccagatgttatccgtttatctaaatcgttaatgtatttatatttgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGCAAAAGTTATAGCACAAACCTTGCATATACACCTCCAGAGTATTTGA
upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g39670.1 (Oryza sativa), 3'ss of exon 3
--taaccagtagacattttcctggttgtattgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattgg-ttggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
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tgagtcaagtaggc-tttgtaagatcatagttgattgcattcaacaattcagcatgccatcatgtt-gtaagaaa-agtttctaattaactttcttatcgcagAATGGTGATCCTCGTCTATCATGCTTTGGTTTGATGAAAAACAGCAGGGATGGGAAAAGTTATAGTACAAACCTGGCATATACACCTCCAGAATATCTGA
upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G099598_T01 (Zea mays), 3'ss of exon 3
---taaccagtagacattttcctggttgtattgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattggttggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
| | | | | || | || | || | | ||| | | || | | | || ||| || | ||| ||||||||||||||| || ||||| |||||||| |||||||||| || || ||||| ||||| || |||||||||||||| ||||||||||| || ||| |||
tctttgcgatgacatcgattgcgttttacagcactttatacgtttctcaaactttactaatcctgcatgggctaaac---aaccaatataatttcttttgcagAATGGTGATCCTCGCCTTTCATGCTTTGGCCTGATGAAAAACAGTAGGGATGGGAAAAGCTATAGCACAAATCTTGCATATACACCTCCAGAATATTTAA
upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 3
taaccagtagacattttcctggttgtat-tgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattggt----tggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
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----tctttgtgatgacaacgattgcatgttacattactttgcatgtttctcaaactgtaataatc-cttcatgtgatgaacaaccaatataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA
upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G026767_T01 (Zea mays), 3'ss of exon 3
taaccagtagacattttcctggttgtattga-------aataaaactatctggagaccaattagtag-taatagcaacaagtggtaacttattggttggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
||| || | | ||| ||| || | ||| | | | | | | ||| | || | | ||| ||| | | ||||| |||||||||||| || ||||| || ||||||||| |||||||||| ||||| ||||||||||| || ||||| || || || ||||||||||| || ||||| |
---taagttgatact--cctaattgcatccagttgttgaatgtcattttgtactgtcttattttcaaacaaaaatgtctagttataatgaactttctggtt---gcagAATGGTGACCCTCGGCTGTCATGCTTTGGTCTGATGAAAAACAGCAGGGATGGAAAAAGCTATAGCACGAACCTAGCATATACACCTCCAGAATATCTGA
upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S156_133V6.1 (Physcomitrella patens), 3'ss of exon 4
taaccagtagacattttcctggttgtattgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattggttggtt-----ttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
|| | || || | | ||| |||| || || ||| ||| | || || ||||| | ||| ||| |||| || ||||| || || || ||||| | ||||| || ||||||||||| ||||| |||||||| ||||| || || || ||||||||||| |||
--ttttgtggtttttcctttgaactagctctgcttgg--tatgtggatgttaactaa-agtctagaaaacggttagtttatttatggttatctgcaatttatcagGATGGAGACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGGAAAAGCTACAGCACCAATCTGGCTTACACTCCTCCTGAGTACTTAA
upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S9_348V6.1 (Physcomitrella patens), 3'ss of exon 4
taaccagtagacattttcctggttgtattgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattggttg-----gttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
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--tcgtgtgggt-ttcctttggaaatagttctacttag-tacgtggatttcaactgcagttaatag-aatgctcagtatattaacgattctctacgattttgtagGACGGAGACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGAAAAAGCTACAGCACCAATTTGGCTTACACTCCTCCTGAGTACTTGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|161707211|gb|FC057673.1|FC057673EST: GGCGGCCATTGTACCATGACTTGAATGCTTACAGGGTTCTCTTTGATGAG AATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGAT
genomic: GGCGGCCATTGTACCATGACTTGAATGCTTACAGGGTTCTCTTTGATGAGgtattgtaac ... gttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGAT
EST:
gi|161717682|gb|FC066283.1|FC066283EST: GGCGGCCATTGTACCATGACTTGAATGCTTACAGGGTTCTCTTTGATGAG AATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATA
genomic: GGCGGCCATTGTACCATGACTTGAATGCTTACAGGGTTCTCTTTGATGAGgtattgtaac ... gttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATA
EST:
gi|34543647|gb|CF511879.1|CF511879EST: TTCTCTTTGATGAG AATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGAT
genomic: TTCTCTTTGATGAGgtattgtaac ... gttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaccaattagtagtaatagcaacaagtggtaacttattggttggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
tggtaac putative branch site (score: 2)
aattagtagtaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaccagtagacattttcctggttgtattgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattggttggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA
- - - - - - - -ttcctgg
- - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - agaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaacaa