Sequence
atgc intronic sequence ATGC exonic sequencegtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g25734.2 (Oryza sativa), 3'ss of exon 3
--gtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
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gtatgcaaatgacgtgcctttcttgctaacttg---tgatatacagttgtgagatatcagttattacaccacatacttccatatcaaaactcattttgttgcctattttcgtct------tgtagGTTGACACTACCATACTTGGCCTTGACGACGTGAGGGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATCTATGTGATTAGTAAAAATGTAATGCTTC
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 3
gtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
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-----------------------gtaagcccatataacatgtatt-atatgttgttatttatctgg---aaattattacctgagcaattgcttaaaaatgccact----------------agGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 3
gtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
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-----------------------gcaagcccatataagatgtatt-atatgttgttatttatctgg---aaattattacctgaacaattgcttaaaaatgccacttttcttt------tctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G48300.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacc-taaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
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---------------------------------gtactataaactttacgctacttctctgcttcatcatgcggccttgtaaattaaaaaatctcgatttctttgctcc------------tagGTTGACACAACAATTCTAGGTCTTGATGATCAGAGAGCCAAGGAGATGCCTTTCATTGCTAGTATGGGTATTTATGTTGTAAGCAGAGATGTAATGCTAG
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 3'ss of exon 3
gtacacataatttgcctttt-ctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatatt----cccctttaaaatgcc--ttcatctcatatttctgtctgattgatgta-gGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
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gtagatgatatttgaaataaacattcgtattaattt---atgcttttgtgttcctctattctacaattttgtagttttaaagttggttaagaaggctgatacgttttcctttctgaactgttccttttaagGTCGATACTACCATCCTGGGTCTTGATGATGAGAGAGCTAAAGAAATGCCTTACATTGCTAGTATGGGTATATATGTCGTCAGCAAAGATGTGATGTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
tttaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG