Sequence
atgc intronic sequence ATGC exonic sequencegtacgcagcgtcatcggcccatcgattcctccttgccccccgccgcgaaatttgcgcgagtttcctctgttctgtcaaaaacaaaaattcgaaatcggcagGAAAGAGGAGCGCACCTGGACCTCGGACACGTACGCTCCGTACGACGACGGGCACCAGTGGAGGAAGTACGGCGAGAAGAAGCTCTCCAACTCCCACTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063216_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g02420.2 (Oryza sativa), 3'ss of exon 1
----------------------------------------------------gtacgcagcgtcatcg-gcccat---cgattcct----ccttgccccccgccgcgaaatttgcgcgagtttcctctgttctgtcaaaaacaaaaattcgaaatcggcagGAAAGAGGAGCGCACCTGGACCTCGGACACGTACGCTCCGTACGACGACGGGCACCAGTGGAGGAAGTACGGCGAGAAGAAGCTCTCCAACTCCCACTTC
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gtacatatctatggctaccattcttttctcctccatcgatttcttgcttgcagcaaagagcctccccatgtgtatgtgtagttcttgatctgtttctctcctttcttcaatttgtggtgggttc-tgtgatgtgccattgattctgatatggtagccccagGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGACGACGGCCACCAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCCAACTTC
upper sequence: GRMZM2G063216_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g02420.1 (Oryza sativa), 3'ss of exon 1
----------------------------------------------------gtacgcagcgtcatcg-gcccat---cgattcct----ccttgccccccgccgcgaaatttgcgcgagtttcctctgttctgtcaaaaacaaaaattcgaaatcggcagGAAAGAGGAGCGCACCTGGACCTCGGACACGTACGCTCCGTACGACGACGGGCACCAGTGGAGGAAGTACGGCGAGAAGAAGCTCTCCAACTCCCACTTC
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gtacatatctatggctaccattcttttctcctccatcgatttcttgcttgcagcaaagagcctccccatgtgtatgtgtagttcttgatctgtttctctcctttcttcaatttgtggtgggttc-tgtgatgtgccattgattctgatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGACGACGGCCACCAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCC------
upper sequence: GRMZM2G063216_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g02480.2 (Oryza sativa), 3'ss of exon 1
---------------------------------------------gtacgcagcgtcatcggcccatcgattcctccttgccccccg--ccgcgaaatttgcgcgagtttcctctgttctgtcaaaaacaaaaattcgaaatcggcagGAAAGAGGAGCGCACCTGGACCTCGGACACGTACGCTCCGTACGACGACGGGCACCAGTGGAGGAAGTACGGCGAGAAGAAGCTCTCCAACTCCCACTTC
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gtaggtatctattgctaccattcttttctcctccatcgatctcttgcttgcagca--aagggcctccccatgtgtgtgtagttcttgatctgttctctcttcatttgtggtgggtgcgatgccattgattctgatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGACGACGGCCACCAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCC------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaatttgcgcgagtttcctctgttctgtcaaaaacaaaaattcgaaatcggcagGAAAGAGGAGCGCACCTGGACCTCGGACACGTACGCTCCGTACGACGACGGGCACCAGTGGAGGAAGTACGGCGAGAAGAAGCTCTCCAACTCCCACTTC
tcaaaaacaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgcagcgtcatcggcccatcgattcctccttgccccccgccgcgaaatttgcgcgagtttcctctgttctgtcaaaaacaaaaattcgaaatcggcagGAAAGAGGAGCGCACCTGGACCTCGGACACGTACGCTCCGTACGACGACGGGCACCAGTGGAGGAAGTACGGCGAGAAGAAGCTCTCCAACTCCCACTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC