Sequence
atgc intronic sequence ATGC exonic sequence...gtactgttataatgacaacttttccagttggcaccttacattactggctgttccaacatctcgatatttttgtaacacaagcgcttcaaattattttcagGAAGAGAAAGCAATCGGGCGGGGAATCCTTCCCTTGCTTCAACGTGCTACACTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGGTGGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G301552_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g70200.1 (Oryza sativa), 3'ss of exon 2
gtactgttataatgacaacttttccagttggcaccttacattactggctgttccaacatc-----tcgatatttttgtaacacaagc----gcttcaaattat-tttcagGAAGAGAAAGCAATCGGGCGGGGAATCCTTCCCTTGCTTCAACGTGCTACACTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGGTGGGT
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--------ttaat--catctaccctgattggcaccttctatcatactttgtgcccacattctctttggttatttcagcgtattgatcttttgcttctgttattgtttcagGAAGAAAAGGCAATTGGACGTGGAATCCTCCCATTGCTTCAGCGTGCCACCCTGGTTCAGACCTTTGGACAAAAGAACCATGTCTGCTTGAAGGACGGCT
upper sequence: GRMZM2G301552_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA06G17140.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------gtactgttataat----gacaacttttccagtt---ggcaccttacattactggctgttcca--acatctcgatat---ttttgtaacacaagcgctt--caaattatttt----cagGAAGAGAAAGCAATCGGGCGGGGAATCCTTCCCTTGCTTCAACGTGCTACACTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGGTGGGT
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gtaagaaatttagtgtaccattttaattttgttatttaaatcactattagttcttttaagaattcaaacaaattttgtggtttttggtgacaaggaccatggattccactattaaagatgtacatggatattgtaacatgcacttttatcatgtttttttgttccagGAAGAGAAAGCAATTGAAAGAGGAATTCTTCCATTGCTTCAGCGTGCTACCTTGGTTCAAACATTTGGGCAGAGGAATCATGTGTGCTTGAAAGAGGGCT
upper sequence: GRMZM2G301552_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA04G37920.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------gtactgttataat----gacaacttttccagt---tggcaccttacattactggctgt----tccaacatctcgatattt-ttgtaacacaagcgctt--caaattatt----ttcagGAAGAGAAAGCAATCGGGCGGGGAATCCTTCCCTTGCTTCAACGTGCTACACTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGGTGGGT
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gtaagaaatttagtgtaccgttttaattttgctattttcatcactattagttctattaagaattcaaacaaattgtgtggtgtttggtgagaaggaccttggattttattcttcaatatgtacatggatattgtaacatgcacttttatcatgtttttccgttccagGAAGAGAAGGCAATTGAAAGAGGAATTCTTCCATTGCTTCAGCGTGCTACCTTGGTTCAAACATTTGGACAGAGGAATCATGTGTGCTTGAAAGAGGGCT
upper sequence: GRMZM2G301552_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT5G61840.1 (Arabidopsis thaliana), 3'ss of exon 2
gtactgttataatgacaacttttccagt----tggcaccttacattactggctgttccaacatctcgatatttttgtaacacaagcgcttcaaattatttt--cagGAAGAGAAAGCAATCGGGCGGGGAATCCTTCCCTTGCTTCAACGTGCTACACTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGGTGGGT
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---ttgatggagcagaaaattttcacgagccgtgacaacaaagatttgtgcctgt---gatactgctaacctagctgatctcttgttttgtgtttgactgtggcagGAAGAGAAGGCAATAGGAAGAGGAATACTACCCTTGCTTCAACGAGCTACACTGGTGCAGACATTTGGACAAAGGAATCATGTTTGCTTGAAAGAAGGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggctgttccaacatctcgatatttttgtaacacaagcgcttcaaattattttcagGAAGAGAAAGCAATCGGGCGGGGAATCCTTCCCTTGCTTCAACGTGCTACACTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGGTGGGT
ttgtaac putative branch site (score: 2)
ttattttc putative PPT
ttcaaattattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgttataatgacaacttttccagttggcaccttacattactggctgttccaacatctcgatatttttgtaacacaagcgcttcaaattattttcagGAAGAGAAAGCAATCGGGCGGGGAATCCTTCCCTTGCTTCAACGTGCTACACTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGGTGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - gcacctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttcaa