Sequence
atgc intronic sequence ATGC exonic sequencegttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 16
-----------------------gttagtatttgattgtt-catttcaatat-gaacatttgc--cttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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gttagcagttttttcccaataagttcggccttttacctttgcattgccatgttgctcagtggcttcttttacctttatactgttgtgttgctcagtagtttctgtttgaattga-ttgtagGTTTTGGAGATCAACTTGGTCACTTACCCAAATGTTGCTGATGCCATCCTTGCTAATGGTATGTTCAGTCATTATGATCGCCCTCGTGTTGCTCAGCTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 16
----------------------gttag--tatttgattgttcatttcaatat-gaacatttgc--cttagacctgcatgctgctt------aactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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gttagcagttttttcccaataagttaggccttttgcctttgcattgccatgttgctcagtggcttcttttacctttatactgttgtgtttgtgttgctcagtagtttctgtttgaattgg-ttgtagGTTTTGGAGATCAACTTGGTCACTTACCCAAATGTTGCTGATGCCATCCTTGCTAATGGTATGTTCAGTCATTATGATCGCCCTCGTGTTGCTCAGCTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 14
-----gttagtatttgattgttcatttcaat--atgaac--atttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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gttctcttactttctttgctgtaatctctatccatgagccaattggtgttatatagttttgtt--ttgtttttatatttttttaaatatttactatttt-tagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 16
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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------gttcttttattttctttgctttaatctgtatccatgaaacaat-tggtgttatatagttttttttttaatattt--actatttt-tagGTACTGGAAATTAATCTTGTGACCTTTCCAAATGTTGCTGATGCTATATTGGCCAATGGCATGTTTAGTCATTATGACCGTCCACGGATTGCTCAGCTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 16
--gttagtatttgattgttcatttcaatatgaacatt-tgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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gtgtgtggcctttgtttctcatc-cgttatgggcattctactctgaaaattctttct-ttgaactg-ttacgatctt----gtgaattgctgttcagGTGTTGGAGATAAATCTGGTGACTTTCCCCAATGTTGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAGCTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 16
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactact-caatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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gtgtggcctttgtttctcatct-gttatgggcattttactctgaaaattctttctttgaagtgttacgatgtt------gtgaatcactgttcagGTGTTGGAGATAAATCTGGTGACTTTCCCCAATGTTGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 16
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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gttgaaaagagttgccaccttttacttc-----tctgtgctttccctactcac--cttcctttcttag-accttttagtgcactctcaacacagGTTTTGGAGATCAATTTGGTAACCTTTCCTAATGTGGCTGATGCAATCTTAGCAAATGGGATGTTCAGCCATTATGACCGGCCTCGTGTTGCTCAGCTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 16
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
| ||| || || | | ||||| ||| | || | | | || | ||| ||||||| | |||||||||| ||||| | || || | |||||||| |||||||| || | || ||||||||||| ||||| ||||| || || |||||||| |||||||
---gtcgatctatttttttttcctaaatgaatttttatatagtttcttta----gttctgcttcctaataa-ttctgctctattc-------agGTTTTGGAAATCAATCTGGTTACATTTCCAAATGTCGCAGATGCTATATTAGCTAATGGTATGTTTAGTCACTATGATCGCCCACGTATTGCACAGCTCT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 16
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
|| || || | || | ||| || | ||| | || | ||| | || | | |||| || |||| |||| ||||| | || ||||||||||||||||||||||| || | || ||||| ||||| || |||||||| ||||| || ||||| ||||| |
-------gttacttttttcctctgatgcaat--tttattttcactattcatcattttt---ttttcagt-tccataacatttcttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
lower sequence: PP1S270_53V6.1 (Physcomitrella patens), 3'ss of exon 16
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatg-ctgcttaact-actcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
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gtaaaaatttaa--atctagcttctcagttacatttgc--tgattttttatgattccttaactcatgctgtactttccacgtgtat------acagGCTCTCGAAATCAATCTTGTCACTTTTCCAAACGTCGCAGATGCGATTTTGACTAATGGCATCTTCAAACATTATGACCGTCCTCGAATTGCTCAGCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
gcttaac putative branch site (score: 3)
ttgtctt putative PPT
ttaacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC