Sequence
atgc intronic sequence ATGC exonic sequence...cattttcttcttctatcataagtgctaggttgtcattttttactgcactcagttgttttatcttggttttctttaatatgtattccgttgtcatgtgcagATAGATGAGAATGTCCAGCGTGAGATAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAGGTGAGTTGGGATTGTGATGCTGTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G138861_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 1
cattttcttcttctatcataagtgctaggttgtcattttttactgcactcagttgttttatcttggttttctttaatatgtattccg----ttgtcatgtgcagATAGATGAGAATGTCCAGCGTGAGATAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAGGTGAGTTGGGATTGTGATGCTGTTT
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---caacttattaagacccaacc-ttaattggtgtattgtgactacattatatttttccacatttgttttgtttattacttattttgtttattctcttgtacagATAGATGATAATGTCCAGCGTGAGATTATAAATCACCGATCGTTGAAACATCCTAACATTATTAGGTTTAAGGAG-------------------------
upper sequence: GRMZM2G138861_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT3G50500.1 (Arabidopsis thaliana), 3'ss of exon 1
cattttcttcttctatcataagtgctaggttgtcattttttactgcactcagttgttttatcttggttttctttaata-tgtattccgttgtcatgt-gcagATAGATGAGAATGTCCAGCGTGAGATAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAGGTGAGTTGGGATTGTGATGCTGTTT
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tttaatggtggttacttactgttactatgattaaatgcttttgaaaagtt--ttgatatttctcaataaatgatgatacttttttttatggttgttttgcagATTGATGAAAATGTTCAGAGGGAGATTATCAATCATAGATCATTGAGACATCCTAATATTGTTAGGTTTAAAGAG------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cactcagttgttttatcttggttttctttaatatgtattccgttgtcatgtgcagATAGATGAGAATGTCCAGCGTGAGATAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAGGTGAGTTGGGATTGTGATGCTGTTT
ctttaat putative branch site (score: 4)
ttttctttaatatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattttcttcttctatcataagtgctaggttgtcattttttactgcactcagttgttttatcttggttttctttaatatgtattccgttgtcatgtgcagATAGATGAGAATGTCCAGCGTGAGATAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAGGTGAGTTGGGATTGTGATGCTGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT