Sequence
atgc intronic sequence ATGC exonic sequencegtaggtccttaacttgcctagtgatttatagtatatcattgttgtttccttcaatatccttaatgttgactgctagaaaccatcattaattttgactcttgctagGTGGTGTTACCGAGCTGCCATGCCCGTATAGGTGCATATCTGATAAGTACAAGATGCCAAACTGTTACACACCACTTGAGGAACTTATGTATACTTTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g10380.1 (Oryza sativa), 3'ss of exon 13
gtaggtccttaac------ttgcctagtg---atttatagt-atatcattgttgtttc-cttcaatatccttaatgttgactgctagaaacca-tcattaattttgactcttgctagGTGGTGTTACCGAGCTGCCATGCCCGTATAGGTGCATATCTGATAAGTACAAGATGCCAAACTGTTACACACCACTTGAGGAACTTATGTATACTTTTGG
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gtaggtccttggaaagacatggtcttatgtggaactataattatttaattgccttgtaactccaaaatttatgatgttaaattggagaaactaaccattaactttt-tacatgctagGTGGTGTTACCGAGCCGTCCTGCCCATATAAGTGCATATCTTCTAAGTACAAGATGCCAAACTGTTACACACCACTTGAGGAACTTATTTATACTTTTGG
upper sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ26064 (Selaginella moellendorffii), 3'ss of exon 13
gtaggtccttaacttgcctagtgatttatagtatatcattgttgtttccttcaatatccttaatgttgactgctagaaaccatcattaattttgactcttgctagGTGGTGTTACCGAGCTGCCATGCCCGTATAGGTGCATATCTGATAAGTACAAGATGCCAAACTGTTACACACCACTTGAGGAACTTATGTATACTTTTGG
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-------------------------------------gttagtgttttgatttatgtgtttcaaactctctacg------caactctggctttgttttt---cagGAGGAGCACTCAAGCCTACATGCCCCTATCAGTGCCATTCCGATAAGTACAGGATGCCAAACTGTTATACACCATTAGAAGAGTTGATATATGCGCTGGG
upper sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ14465 (Selaginella moellendorffii), 3'ss of exon 13
gtaggtccttaacttgcctagtgatttatagtatatcattgttgtttccttcaatatccttaatgttgactgctagaaaccatcattaattttgactcttgctagGTGGTGTTACCGAGCTGCCATGCCCGTATAGGTGCATATCTGATAAGTACAAGATGCCAAACTGTTACACACCACTTGAGGAACTTATGTATACTTTTGG
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-------------------------------------gttagtgttttgatttatgtgtttcaaactctctacg------caactctggctttgttttt---cagGAGGAGCACTCAAGCCTACATGCCCCTATCAGTGCAATTCCGATAAGTACAGGATGCCAAACTGTTATACACCATTAGAAGAGTTGATATATGCGCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatatccttaatgttgactgctagaaaccatcattaattttgactcttgctagGTGGTGTTACCGAGCTGCCATGCCCGTATAGGTGCATATCTGATAAGTACAAGATGCCAAACTGTTACACACCACTTGAGGAACTTATGTATACTTTTGG
ttttgac putative branch site (score: 3)
ctcttgct CT-rich tract
atcattaattttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtccttaacttgcctagtgatttatagtatatcattgttgtttccttcaatatccttaatgttgactgctagaaaccatcattaattttgactcttgctagGTGGTGTTACCGAGCTGCCATGCCCGTATAGGTGCATATCTGATAAGTACAAGATGCCAAACTGTTACACACCACTTGAGGAACTTATGTATACTTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG