Sequence
atgc intronic sequence ATGC exonic sequencegagtatttcgaactaccttttttgttgcactcgttagccaccaaaatattgtctaatcaacttctttattattgtgctatcacacagCTTCCTACCATCCTTTCACTGTCCACGAAATGTGTTCCCTCTATAATGAACATCCTGAAGAGATTAGCTGACCCGGGTCAAGAACCGGCAACAGCCCCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G177016_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g39310.1 (Oryza sativa), 3'ss of exon 22
--gagtatttcgaactaccttttttgttgcactcgtt---agccaccaaaatattgtctaatca---acttctttattattgtgctatcacacagCTTCCTACCATCCTTTCACTGTCCACGAAATGTGTTCCCTCTATAATGAACATCCTGAAGAGATTAGCTGACCCGGGTCAAGAACCGGCAACAGCCCCCA
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gtaagtattg-aagccacattgccattagtatatatttcaagcttcctaaagagtttctctcctgatacttgtttttatgcctgcaatgttgcagCTTCCAGCCGTCCTATCACTTTCGACGAAATTCGTTCCCACGATAATGAACATCCTGAAGAGATTAGCTGATGAGGGGCAGAGACCTGCAGCCCCAGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttagccaccaaaatattgtctaatcaacttctttattattgtgctatcacacagCTTCCTACCATCCTTTCACTGTCCACGAAATGTGTTCCCTCTATAATGAACATCCTGAAGAGATTAGCTGACCCGGGTCAAGAACCGGCAACAGCCCCCA
gtctaat putative branch site (score: 3)
aaaatattgtctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtatttcgaactaccttttttgttgcactcgttagccaccaaaatattgtctaatcaacttctttattattgtgctatcacacagCTTCCTACCATCCTTTCACTGTCCACGAAATGTGTTCCCTCTATAATGAACATCCTGAAGAGATTAGCTGACCCGGGTCAAGAACCGGCAACAGCCCCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC