Sequence
atgc intronic sequence ATGC exonic sequencegtaaataacagcattctagatgatgaagaccaaggtgacgtgataggggagtacacacctgatgttcttgttactgaatttgtgagtatgcctctgtttgcttctacttactaggatgctattcctcacgtttgtttaactaattggacctataacatcctgcagATGAAAGGCGAGAAGCAACTTGTGGAAAAACTACTGCAAACAGAAATAAATTTACTCCGCTCAATCAGGGATGGTTCGGCTCTTATGCAGCACATGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AC199705.3_FGT008 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g43030.1 (Oryza sativa), 3'ss of exon 15
gtaaataacagcattctagatgatgaagaccaaggtgacgtgataggggagtacacacctgatgttcttgttactgaatttgtgagtatgcctctgtttgcttctacttactaggatgctattcctcacgtt-tgtttaactaattggacctataacatcc-tgcagATGAAAGGCGAGAAGCAACTTGTGGAAAAACTACTGCAAACAGAAATAAATTTACTCCGCTCAATCAGGGATGGTTCGGCTCTTATGCAGCACATGGAAG
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-----------------------------------------------------------tcataataccgatg-taagttgaagaggata-----aatgattcttgaataaacaaatgattttgctcaaattgcaattga--aatcaggtgtattaaatccctgcagATGAAAGGAGAAAAGCAACTTGTGGAAAAACTACTTCAGACAGAAATAAATTTGCTCCGATCAATCAGGGATGGTTCAGCTCTTATGCAGCACATGGAAG
upper sequence: AC199705.3_FGT008 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g43030.1 (Oryza sativa), 3'ss of exon 14
gtaaataacagcattctagatgatgaagaccaaggtgacgtgataggggagtacacacctgatgttcttgttactgaatttgtgagtatgcctct--gtttgcttctacttactaggatgctattcctcacgttt--gtttaactaattggacctataacat-cctgcagATGAAAGGCGAGAAGCAACTTGTGGA-----AAAACTACTGCAAACAGAAATAAATTTACTCCGCTCA-ATCAGGGATGGTTCGGCTCTTATGCAGCACATGGAAG
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---------------------------------------gtgatt----agtattcttatcctatttcaatcaactttgttgtaggaatgttttttagttccattcaaagttccgtgtttttatccataagattctaaagttctcaactgaaaccattgtatgtattttgatatagGTAGATGAGGAGACTATAGATGATGAAGGTGATTCCATAGGGGAGTACACCCCTGATGTTCTTGTCAGTGAATTT-------------------------
upper sequence: AC199705.3_FGT008 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0077g00490.t01 (Vitis vinifera), 3'ss of exon 2
gtaaataacagcattctagatgatgaagaccaaggtgacgtgataggggagtacacacctgatgttcttgttactgaatttgtgagtatgcctctgtttgcttctacttactaggatgctattcctcacgtttgtttaactaattggacctataacatcctgcagATGAAAGGCGAGAAGCAACTTGTGGAAAAACTACTGCAAACAGAAATAAATTTACTCCGCTCAATCAGGGATGGTTCGGCTCTTATGCAGCACATGGAAG
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--------------------------agtcaataaataaatggcaatcgccaatcaaccgcgcatttttatttcaaaaattagcaaattgttgcaact-acttaaaagttaaaacatgctatttcagGAAAACATGGAGCTTTTGGGAGATG-GTTACCAAGGTGATGTGATTGGAGAGTCAACACCTG---ATGTTCTTGTTAATGAATTT----------------------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaggatgctattcctcacgtttgtttaactaattggacctataacatcctgcagATGAAAGGCGAGAAGCAACTTGTGGAAAAACTACTGCAAACAGAAATAAATTTACTCCGCTCAATCAGGGATGGTTCGGCTCTTATGCAGCACATGGAAG
tttgtttaactaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataacagcattctagatgatgaagaccaaggtgacgtgataggggagtacacacctgatgttcttgttactgaatttgtgagtatgcctctgtttgcttctacttactaggatgctattcctcacgtttgtttaactaattggacctataacatcctgcagATGAAAGGCGAGAAGCAACTTGTGGAAAAACTACTGCAAACAGAAATAAATTTACTCCGCTCAATCAGGGATGGTTCGGCTCTTATGCAGCACATGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG