Sequence
atgc intronic sequence ATGC exonic sequence...tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 10
-tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
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gtatgacatttcttgtctgctttgcaa---ttctgtactctgtacaatttctggatt-----caacaaagtg-gctcacttctttgcat----attgacagGTACAGTATGGTTTTGGCTGATAATGTTGATGGTGGAGATGACCTCGATCTTATTGTTACTACCATGAATGGCAATGTCTTCTGCTTCTCCACTCCCTCT
upper sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
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--------------------gtaagagattctt-taacctgtctcttgaatatgctttc-tgtcctactttcttgaagttatgtgccattctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT
upper sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
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---gtaagagattctttaa-ctgttatctctcggatatgctttc---tgttctactttcttgaag-------------ttatgtgccattttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
upper sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
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----------------------gtaagtcacttttgcttcctctcggcac-gtaatatctttagta--ttttgaccac--caatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
upper sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcact-tctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
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---gtaagttatcctccact----actatt-------catgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttatt-acagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
cttctttgcacttt CT-rich tract
atcaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA
tatgcaa
- - - - - - - tctgctc
- - - - - - - - - - - - - - ttttggt
- - - - - - - - - - - - - - - - - - - - - - -ggtactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caataaa