Sequence
atgc intronic sequence ATGC exonic sequencegtaagagaagcatcactattattatcatctatttgtttagtttatatgaagaatttgatgttcttgatttctttccaccgtaccgataaagctgttgtttattaattaccaagacattaattttttatgctaaaatatgaagaaacaattaaaaatgttcttttaatatctcagGAAGAACATACCAACCTATCAGACGAAGAATTATATCGGTATGCCAGATTGGTCACTTCTGTTGTCATTGCAAAGGTTCACACTATTGATTGGACTGTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G100724_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g26290.6 (Oryza sativa), 3'ss of exon 6
gtaagagaagcatcactattattatcatctatttgtttagtttatatgaagaat-----ttgatgttcttgattt-ctttccaccg--taccgat---------------aaagctgttgtttattaattaccaagacattaattt------tttatgcta-aaatatgaagaaacaattaaaaatgttcttttaatatctcagGAAGAACATACCAACCTATCAGACGAAGAATTATATCGGTATGCCAGATTGGTCACTTCTGTTGTCATTGCAAAGGTTCACACTATTGATTGGACTGTCG
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gtaagcgaa-tat-atcatcactattttctatttgtttagttt-taggaagaatataatttgctgttcttgactagcttgccactgattgtctatttgtttagttttaggaagaatataaactgttatttaccaaaacattaatttgttttctttatgctataaatatgaagaaaagattacaaatgtttttttta-atctcagGAAGAACATCCCAACCTATCAGACGAAGAATTATATCGGTATGCCAAATTGGTCACTTCTGCTGTTATTGCAAAGGTTCACACTATTGATTGGACTGTCG
upper sequence: GRMZM2G100724_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G04410.1 (Glycine max), 3'ss of exon 5
gtaagagaagcatcactattattatcatctatttgtttagtttatatgaagaatttgatgttcttgatttctttccaccgtaccgataaagctgttgtttattaattaccaagacattaattttttatgctaaaatatgaagaaacaattaaaaatgttcttttaatatctcagGAAGAACATACCAACCTATCAGACGAAGAATTATATCGGTATGCCAGATTGGTCACTTCTGTTGTCATTGCAAAGGTTCACACTATTGATTGGACTGTCG
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-------------------------------------------------------------------ggctgatccaatataaaattaaagtcata----actatatatatacgcatgaaaagaaaacactaac-tgtgtacatctgtctct--attttaatgcactcattcagAAACATTATCCTCACTTGGGAGATGAAGAACTTTATCGCCATGCTAGATTGGTGACCTCAGCTGTGATTGCAAAGGTTCATACGATTGATTGGACTGTAG
upper sequence: GRMZM2G100724_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G05620.1 (Glycine max), 3'ss of exon 7
gtaagagaagcatcactattattatcatctatttgtttagtttatatgaagaatttgatgttcttgatttctttccaccgtaccgataaagctgttgtttattaattaccaagacattaattttttatgctaaaatatgaagaaacaattaaaaatgttcttttaatatctcagGAAGAACATACCAACCTATCAGACGAAGAATTATATCGGTATGCCAGATTGGTCACTTCTGTTGTCATTGCAAAGGTTCACACTATTGATTGGACTGTCG
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gtgacttcagca--atcattgcaaaagttcacacaattgattggactgtagaactcctaaagactgatactcttctg--gcagGGATGAGA--ATAAACGGGTAAGTCTAAATAGATGTAATTTTGGAGATAAGCTACTTT-ATACAAT-AGCAGTTTTCTATGCAACT---------------------------------------------------------------------------------------------------------
upper sequence: GRMZM2G100724_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G01470.1 (Glycine max), 3'ss of exon 5
gtaagagaagcatcactattattatcatctatttgtttagtttatatgaagaatttgatgttcttgatttctttccaccgtaccgataaagctgttgtttattaattaccaagacattaattttttatgctaaaatatgaagaaacaattaaaaatgttcttttaatatctcagGAAGAACATACCAACCTATCAGACGAAGAATTATATCGGTATGCCAGATTGGTCACTTCTGTTGTCATTGCAAAGGTTCACACTATTGATTGGACTGTCG
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--------------------------------------------------------------------acatatcaaaattaatgtcacaattactatatataaa---cagatgtaaagaaaatatatactaac-tatgtacatccatctct--attttaatgcactcattcagAAACATTATCCTCAATTGGGAGATGAAGAACTTTATCGCCATGCCAGATTGGTGACCTCAGCTGTGATTGCAAAGGTTCATACCATTGATTGGACTGTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttttatgctaaaatatgaagaaacaattaaaaatgttcttttaatatctcagGAAGAACATACCAACCTATCAGACGAAGAATTATATCGGTATGCCAGATTGGTCACTTCTGTTGTCATTGCAAAGGTTCACACTATTGATTGGACTGTCG
ttctttta CT-rich tract
taaaatatgaagaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagaagcatcactattattatcatctatttgtttagtttatatgaagaatttgatgttcttgatttctttccaccgtaccgataaagctgttgtttattaattaccaagacattaattttttatgctaaaatatgaagaaacaattaaaaatgttcttttaatatctcagGAAGAACATACCAACCTATCAGACGAAGAATTATATCGGTATGCCAGATTGGTCACTTCTGTTGTCATTGCAAAGGTTCACACTATTGATTGGACTGTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG