Sequence
atgc intronic sequence ATGC exonic sequence...ccgtttcctcaatacactaaaaaatcactagacagttcccttttctattctgcaattgacattaccttgcctacctctttctgcatcattgccctaaaagCTTGCAAAGAAGCTCCACCCAGACACAAATAAAGGTGATGCGGATGCAGAACGCAAGTTTCAAGAGGTTCAACGAGCTTATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G153068_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g02620.1 (Oryza sativa), 3'ss of exon 3
----------ccgtttcctcaatacactaaaaaatcactagacagttcccttttctattctgcaattgacattaccttgcctacctctttctgcatcattgccctaaaagCTTGCAAAGAAGCTCCACCCAGACACAAATAAAGGTGATGCGGATGCAGAACGCAAGTTTCAAGAGGTTCAACGAGCTTATGAG
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cattggcatttcctttcctta-tgcaccatcgaaagaaaaaaaaaatca-tcgcgtattgtttacctcacaatccctt--------tttttttctttgttgtcctaaaagCTTGCGAAAAAGCTCCATCCGGATACAAATAAAGGTGATTCTGATGCAGAGAGGAAGTTTCAAGAGGTTCAGCGAGCTTATGAG
upper sequence: GRMZM2G153068_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G42640.1 (Glycine max), 3'ss of exon 4
ccgtttcctca-atacactaaaaaatcactagacagttcccttttct---attctgcaattgacattaccttgcctacctctttctgcatcattgccctaaaagCTTGCAAAGAAGCTCCACCCAGACACAAATAAAGGTGATGCGGATGCAGAACGCAAGTTTCAAGAGGTTCAACGAGCTTATGAG
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--gctcttacatatgcaatcacttattcctaagtgagttatttgtctgaaataattctttctatttt-ccttttgtactgtcttttttctccatgttctcca-gCTTGCAAAGAAGCTCCATCCAGACACAAACAAAGATGATCCTGAGGCCGAAAAGAAGTTTCAAGAAGTTTCAATGGCATATGAG
upper sequence: GRMZM2G153068_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G16150.1 (Glycine max), 3'ss of exon 4
ccgtttcctcaatacactaaaaaatcactagacagttcccttttctattctgcaattga-cattaccttgcctac-----ctctttctgcatcattgccctaaaagCTTGCAAAGAAGCTCCACCCAGACACAAATAAAGGTGATGCGGATGCAGAACGCAAGTTTCAAGAGGTTCAACGAGCTTATGAG
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----tctctcttgacacaaaaacacacttaataagtgcgggttatttgtctgaaataattcattctcttttccttttgtactcttttttctccat-gttctgca-gCTTGCAAAGAAGCTCCATCCAGACACAAACAAAGATGATCCTAAGGCTGAAAAGAAGTTTCAAGAAGTTTCAATGGCATATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctgcaattgacattaccttgcctacctctttctgcatcattgccctaaaagCTTGCAAAGAAGCTCCACCCAGACACAAATAAAGGTGATGCGGATGCAGAACGCAAGTTTCAAGAGGTTCAACGAGCTTATGAG
aattgac putative branch site (score: 3)
ttgccct putative PPT
taaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccgtttcctcaatacactaaaaaatcactagacagttcccttttctattctgcaattgacattaccttgcctacctctttctgcatcattgccctaaaagCTTGCAAAGAAGCTCCACCCAGACACAAATAAAGGTGATGCGGATGCAGAACGCAAGTTTCAAGAGGTTCAACGAGCTTATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - -ttctgca