Sequence
atgc intronic sequence ATGC exonic sequence...cagttctgttgaaacctaaaattaaaataggttgacaaaaccttatctttattggtccagcacatgttattgaagttctgctctctctttataatttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0175g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g43870.2 (Oryza sativa), 3'ss of exon 6
cagttctgttgaaacctaaaattaaaataggttgacaaaaccttatctttattggtccagcacatgttattgaagttctgctctctctttataatttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT---------
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--acacagat-atgcttattatttc--ttagctgcctatttcttgtcgatgtatgttttccaaa-gttgt--aagtaaatcttcatctttttt-tttcaggttttccagTTGCAAGTGGACAATGGTATACCAATAAAGAGCTGGTTTGATGACCCCTCAGACCAGGAATTGGTCGAGTTACTCCCATTCCTGGAGACACTTGTTGGTG
upper sequence: Vv13s0175g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g43870.1 (Oryza sativa), 3'ss of exon 6
cagttctgttgaaacctaaaattaaaataggttgacaaaaccttatctttattggtccagcacatgtta--ttgaagttctgctctctctttataatttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT
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gtactatgtacacagatatgcttattatttcttagctg--cctatttcttgtcgatgtatgttttccaaagttgtaagtaaatcttcatctttttttttcagGTTTTCCAGTTGCAAGTGGACAATGGTATACCAATAAAGAGCTGGTTTGATGACCCCTCAGACCAGGAATTGGTCGAGTTACTCCCATTCCTGGAGACAC
upper sequence: Vv13s0175g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g47540.2 (Oryza sativa), 3'ss of exon 6
----------------------------------------------------------------------------cagttctgttgaaacctaaaattaaaa---taggttgacaaaaccttatctttattggtc-cagcacatgttat----tgaagttctgctctctctttataat------ttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT---------
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gtaaactgctgataacttgttctgcgctaatgcacttcgtgttctaaatgttgtcacttatgtttttaagaaggttcagtgttaaagtgtcctggacctacatctctgaatttttgaaatctcccattcatcaactatcgcatgaagtatccgatgagcacctgaatactaatttccatgtttcattcaggttttccagTTGCAAGTGAATAATGGTATACCCATAGAGAGTTGGTTTAGCGACGACTCTGATGAGGCATTACCTCAGCTGATTCCGTTCCTGGAGACCCTTGCTTCTG
upper sequence: Vv13s0175g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g47540.1 (Oryza sativa), 3'ss of exon 6
----------------------------------------------------------------------------cagttctgttgaaacctaaaattaaaa---taggttgacaaaaccttatctttattgg-tccagcacatgttat----tgaagttctgctctctctttataat------ttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT
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gtaaactgctgataacttgttctgcgctaatgcacttcgtgttctaaatgttgtcacttatgtttttaagaaggttcagtgttaaagtgtcctggacctacatctctgaatttttgaaatctcccattcatcaactatcgcatgaagtatccgatgagcacctgaatactaatttccatgtttcattcagGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGTTGGTTTAGCGACGACTCTGATGAGGCATTACCTCAGCTGATTCCGTTCCTGGAGACCC
upper sequence: Vv13s0175g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G162347_T02 (Zea mays), 3'ss of exon 6
----cagttctgttgaaacctaa--aattaaaataggttgacaaaaccttatctttattggtccagcacatgttattgaagttctgctctctctttataatttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT
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agtaccttttcatcgtagccttttttgccatcttaaattatttacatactatatatattcatt-attttttgttaatta-gttgaagcatttctttat----ctagGTTTTCCAGTTGCAAGTGGATAACGGCATACCGATTAAGAGCTGGTTTGATGACCCCTCAGATCAGGAACTGATCGAGTTGCTCCCGTTCTTGGAGAGCC
upper sequence: Vv13s0175g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G068690_T03 (Zea mays), 3'ss of exon 6
-----cagttctgttgaaacctaaaattaaaataggttgacaaaaccttatctttattggtccagcacatgttattgaagttctgctctctctttataatttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT
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aactatcttttcatcagagcctttttgctatatgaaatatttacatactatatatgt--attcattattttttgtt-aattaatgaagcatttctttg--tccagGTTTTCCAGTTGCAAGTGGATAACGGCATACCAATTAAGAGCTGGTTTGATGACCCCGCAGACCAGGAATTAATCGAGTTACTCCCGTTCCTGGAGAGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttattggtccagcacatgttattgaagttctgctctctctttataatttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT
ttctgctctctcttta CT-rich tract
tctctttataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagttctgttgaaacctaaaattaaaataggttgacaaaaccttatctttattggtccagcacatgttattgaagttctgctctctctttataatttcagGTTTTCCGGTTGCAAGTGGATAATGGAATTCCTATTAAGAGTTGGTTTGATGACCCATCAGACCGTGCACTTATTTCATTACTTCCCTTTTTAGAGACCT
- - tctgttg
- - - - - -aaaccta
- - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - -caaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcacatg