Sequence
atgc intronic sequence ATGC exonic sequencegtgaatcaggcttattgccttttctttcagttcactatgaggattgtcatgatttctctattcttgtatgattgtatctaacctggaatcttacatgtgtttacctatttcagATCCTAAGGTGTGGTCCTCCTTCGATGAACAAGGCCATGGCTGCACACCTTGACGAGCTCAACTACACGAAGGAGATGCAGTTCCAGTTCTAAGCAACGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G076206_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g40990.1 (Oryza sativa), 3'ss of exon 8
--------------gtgaa----tcaggcttattgccttttctttcagttcactatgaggattgtcatgatttctctattcttgtatgat-tgtatctaacctggaatctt-------acatgtgtttacctatttcagATCCTAAGGTGTGGTCCTCCTTCGATGAACAAGGCCATGGCTGCACACCTTGACGAGCTCAACTACACGAAGGAGATGCAGTTCCAGTTCTAAGCAACGC
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gtaggtgtcacattgtgatgtcttctgtggtagcgtgccttctggaacttggaaccgacaattgctaagagaatagttgaagtgtattccatctaccaagcaggacatctgtgtgacaatgtatggttgctcctttcagATATTGAGATGCGGACCTCCTCCCATGAACAAAGCCATGGCTGAACACCTGGAGAATCTTGGCTACACGAAGGAAATGCAGTTCCAATTCTAAGCCTCCA
upper sequence: GRMZM2G076206_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G29720.1 (Glycine max), 3'ss of exon 8
gtgaatcaggcttattgccttttctt-tcagttcactatgaggattgtcatgatttctct-----attcttgtatgattgtatctaacctggaatcttacatgtgtttacctatttcagATCCTAAGGTGTGGTCCTCCTTCGATGAACAAGGCCATGGCTGCACACCTTGACGAGCTCAACTACACGAAGGAGATGCAGTTCCAGTTCTAAGCAACGC
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--gtaattgtttcattatttaaccccattactccaaaattatg-ttatgatgttttcttttgctagttgtcatgtaaaaggaagataaatgatttgacgcatttcttgcggattttcagATATTGAGATGTGGCCCCCCACCTATGAACAAGGCCATGGCTGCTCACCTTGAAGCCCTTGGATATGCTCCTGAGATGCAGTTCCAGTTCTGATTCTCTT
upper sequence: GRMZM2G076206_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G00920.1 (Glycine max), 3'ss of exon 8
gtgaatcaggcttattgccttttctttcagttcactatgaggattgtcatgatttctctattcttgtatgattgtatctaacctggaatcttacatgtgtttaccta--tttcagATCCTAAGGTGTGGTCCTCCTTCGATGAACAAGGCCATGGCTGCACACCTTGACGAGCTCAACTACACGAAGGAGATGCAGTTCCAGTTCTAAGCAACGC
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--gtaattgtttcattatttaacccattactccaaaattatgat-attttcttttgctaatcattgcataaaaggaa--gataaatgattagacgtgtttcttgcggattttcagATATTGAGATGTGGCCCACCACCTATGAACAAGGCCATGGCTGCACACCTTGAAGCCCTTGGATATGCTTCTGAGATGCAGTTCCAGTTCTGATTCTCTT
upper sequence: GRMZM2G076206_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT5G17770.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgaatcaggcttattgccttttctttcagttcactatgaggattgtcatgatttctctattcttgtatgattgtatctaacctggaatcttacatgtgtttacctatttcagATCCTAAGGTGTGGTCCTCCTTCGATGAACAAGGCCATGGCTGCACACCTTGACGAGCTCAACTACACGAAGGAGATGCAGTTCCAGTTCTAAGCAACGC
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-tgcaagagaat-gtaacattgataaacaattcatttttgg--------tgaggagcatatggtt-taagatggtgtgtcgatctaagtatggttcatgtttaa--attgcagATCCTAAGATGCGGACCACCGCCAATGAACAAGGCCATGGCTGCAAACCTTGAAGCTCTGGGATACTCTCCGGAGATGCAATTCCAGTTCTGATCTGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattcttgtatgattgtatctaacctggaatcttacatgtgtttacctatttcagATCCTAAGGTGTGGTCCTCCTTCGATGAACAAGGCCATGGCTGCACACCTTGACGAGCTCAACTACACGAAGGAGATGCAGTTCCAGTTCTAAGCAACGC
cctatttc CT-rich tract
tatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaatcaggcttattgccttttctttcagttcactatgaggattgtcatgatttctctattcttgtatgattgtatctaacctggaatcttacatgtgtttacctatttcagATCCTAAGGTGTGGTCCTCCTTCGATGAACAAGGCCATGGCTGCACACCTTGACGAGCTCAACTACACGAAGGAGATGCAGTTCCAGTTCTAAGCAACGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA