Sequence
atgc intronic sequence ATGC exonic sequencegtttgtctcagtttgtgattctgatgcattggagaagaggattatcatagaacttcagcactgcttaaagttggcattgcttcatttctagGCTTTGCGGAAACAACCAATGACAGTTTATGGCGATGGAAAACAGACTAGAAGTTTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g17230.1 (Oryza sativa), 3'ss of exon 4
gtttgtctcagtttgtgattctgatgcattggagaagaggatt----atcatagaacttcagcactgcttaaagttggcattgcttcatttctagGCTTTGCGGAAACAACCAATGACAGTTTATGGCGATGGAAAACAGACTAGAAGTTTTCA----------------
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gtttgtgttaatttatgattctaatcctttggaaaagagaaataagtatatttgaagtttagcattacttactattaaagatgcctcatttccagACATTGCGGAAACAGCCAATGACAGTTTATGGTGATGGAAAGCAGACTAGAAGTTTTCAATATGTTTCAGATTTG
upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT3G53520.4 (Arabidopsis thaliana), 3'ss of exon 4
gtttgtctcagtttgtgattctgatgca------ttggagaagaggattatcatagaacttcagcactgcttaaagttggcattgcttcatttctagGCTTTGCGGAAACAACCAATGACAGTTTATGGCGATGGAAAACAGACTAGAAGTTTTCA----------------
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gtttagctccttcatcaacataaagacaaccgctttcgtataaagccttttgaaaacactctgacagaact----attgtggcttatatctatgcagACCATTCGCAAACACCCAATGACTGTTTATGGTGATGGAAAACAGACTCGTAGCTTTCAATATGTTTCTGACTTG
upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT3G53520.3 (Arabidopsis thaliana), 3'ss of exon 4
gtttgtctcagtttgtgattctgatgca------ttggagaagaggattatcatagaacttcagcactgcttaaagttggcattgcttcatttctagGCTTTGCGGAAACAACCAATGACAGTTTATGGCGATGGAAAACAGACTAGAAGTTTTCA--------------------
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gtttagctccttcatcaacataaagacaaccgctttcgtataaagccttttgaaaacactctgacagaact----attgtggcttatatctatgcagACCATTCGCAAACACCCAATGACTGTTTATGGTGATGGAAAACAGACTCGTAGCTTTCAATATGTTTCTGACTTGGTAC
upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 4
lower sequence: PP1S209_52V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------------------------------------------gtt-tgtctcagtttgtgattctgatgcattggagaagaggattatcatagaacttcagcactgctt----aaagttggcattg--cttcatt-tctagGCTTTGCGGAAACAACCAATGACAGTTTATGGCGATGGAAAACAGACTAGAAGTTTTCA----------------
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gtgagtttttcgcatggacattatcgtgacatgtgtagtgtgattttatgtttgagtaattattcagtgttatgactaaattcggaagattg-cgtcctatgcatgacctatttaatggcaattcagtgtttttctgacaaggttactgtttgccttcattatccagGCCCTGAGGAAAGAGCCCATGACAGTTTATGGTGATGGAAAGCAGACGAGAAGTTTCCAGTATGTTTCAGATCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaggattatcatagaacttcagcactgcttaaagttggcattgcttcatttctagGCTTTGCGGAAACAACCAATGACAGTTTATGGCGATGGAAAACAGACTAGAAGTTTTCA
cttcatttct CT-rich tract
ttatcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtctcagtttgtgattctgatgcattggagaagaggattatcatagaacttcagcactgcttaaagttggcattgcttcatttctagGCTTTGCGGAAACAACCAATGACAGTTTATGGCGATGGAAAACAGACTAGAAGTTTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT