Sequence
atgc intronic sequence ATGC exonic sequencegtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 14
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttat-ctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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--------------------------------gtaaggctgagcatttctatggttacatg-gccatcattttttttttaacctcttaccctctctaataagctgcatgcagGTTGTTGCATCTCAAGACTGGCCAGAAGTTACAAAGTATGCTGGATTGGTGTGTGCTCAGGCTCATCGGCAAGAGCTCATTCAAGATCTTTACAAGACAT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 14
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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-----------------gtaagcatttccaaactcctatat-acagctaa-gggatgtgc-tatgcttgatat-atactgaatacggtaatc----------------cagGTTGTAGCCTCCCAGGACTGGCCTGAAGTAACAAAGTATGCAGGGTTGGTTTGTGCTCAGCCTCATCGAGAAGAACTAATTCAAGATCTTTTCCGATGTT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA05G08170.1 (Glycine max), 3'ss of exon 13
gtaaggctcgttactactttgccatttcttcatcaatatgtc--acattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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-------------------------------gtaagtatttccaaagtcctttaacttatagctggccatatatttggtct-----------tctgattactgttattca--gGTTGTAGCCTCCCAGGACTGGCCAGAAGTGACAAAATATGCAGGATTGGTATGTGCTCAGCCTCATCGCGAGGAACTCATTCAAGACCTTTTTAAATGTT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 14
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgca-catccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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----------------------------gtaaggattata-cacttttatcaagtagtggagcatcgaaattcat----tatactcagtttttttcttttgttttctt-tagGTTGTTGCTTCTCAAGACTGGCCTGAAGTGACAAAATATGCGGGTTTAGTTTGTGCTCAAGCTCACAGGCAAGAACTTATACAAGATTTGTATAAAACAT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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gtaaaatttctttaactgatatcatgcttcc--tagaaccttgtttttcctaaagtggttat-tgaggaactttgttgctgatagattgttgtat-------taattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 14
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttattttt---gttccgaacttatctgtctgcctctttctgct-cacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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---------------------------------------gtaaggat-atgaaaacctgtatttcccaaaatctacagttccatgtttgagtccatattgattacaattatacagGTAGTAGCCTCCCAAGACTGGCCAGAAGTCACCAAGTATGCTGGATTGGTATGTGCTCAGGCTCATCGGCAAGAACTTATTCAAGATTTGTATAAAACCT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 15
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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------------------------------------------------------------gtatgct-gctcttccgctgcagccgtgaaact--caattgctg-ttatagGTTGTTGCATCGCAAGATTGGCCCGAGGTGACGAAGTATGCGGGATTAGTTTGTGCTCAAGCACATCGTCAAGAACTGATACAAGATCTCTACAAGACCT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: EFJ19862 (Selaginella moellendorffii), 3'ss of exon 14
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcac-atccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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----------------------------------------------------gtaagtgtacgatttttcttttcgtgtgtctctcaataagctgcctgtt-------acagGTTGTCGCTTCTCAGGATTGGCCAGAAGTAACGAAATACGCAGGTCTAGTCTGCGCTCAAGCTCACAGACAAGAGTTGATCCAAGATTTGTATAAAACAT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 15
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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------------------------------------------------------------gtatgct-gcttttccgctacagtcgtgaaact--caattgctg-ttatagGTTGTTGCATCGCAAGATTGGCCCGAGGTGACGAAGTATGCGGGATTAGTTTGTGCTCAAGCACATCGTCAAGAACTGATACAAGATCTCTACAAGACCT
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
lower sequence: EFJ14095 (Selaginella moellendorffii), 3'ss of exon 14
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
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--------------------------------------------------------gtaagtgtacgatttttcttttcgtgtgtctctaaataagctgtgcctgttacagGTTGTCGCTTCTCAGGATTGGCCAGAAGTCACGAAATACGCAGGTCTAGTGTGCGCTCAAGCTCACAGACAAGAGTTGATCCAAGATCTGTATAAAACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
cttatctgtctgcctc CT-rich tract
ttatttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA