Sequence
atgc intronic sequence ATGC exonic sequence...aaacaagaaactttaaggcaattgtcaaagataattaattctgtattccactttttttgttgattactaatgctgccatttgctgtttgtatttttttagGTACAAGGTTTTCAAAAATCCGAGCATTAGTGATGTCCTATGCACAACAACAGCATAGGCTCTTGCAATGGGGAAATTCGTGATCTGCGCAGAACATCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G100766_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g33580.1 (Oryza sativa), 3'ss of exon 6
-------------aaacaagaaactttaaggcaattgtcaaagataattaattctgtattccactttttttgttgattactaatgctgccatttgctgtttgtatt-tttttagGTACAAGGTTTTCAAAAATCCGAGCATTAGTGATGTCCTATGCACAACAACAGCATAGGCTCTTGCAATGGGGAAATTCGTGATCTGCGCAGAACATCCA
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gtatgtatcactcaagaaaaacagtgtgctctcaggttccatatcatttcatcatctgtgtt-taccttttggtgatcactgatccagctgcctttcttttgtgctactttcagGTACAAGGTATTCATCAACCCGAGCATCAGTGATGTCCTGTGCACAGCAACAGCGGAAGCTCTCGCGATGGGGAAGTTCGTCATCTGCGCGGAGCATCCA
upper sequence: GRMZM2G100766_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA03G36050.1 (Glycine max), 3'ss of exon 6
aaacaagaaactttaaggcaattgtcaaagata-attaattctgtattccacttttttt--gttgattactaatgctgccatttgctgtttgtatttttttagGTACAAGGTTTTCAAAAATCCGAGCATTAGTGATGTCCTATGCACAACAACAGCATAGGCTCTTGCAATGGGGAAATTCGTGATCTGCGCAGAACATCCA
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acacatgattctttctcatcctttacatgcccagactcaatctggaatttgtttttattaagtttggttcttattttgacacactttatccttatt---gtagGTACAAAGTCTTTATAAATCCTAGCATTAGTGATGTGCTATGCACAGCTACAGCTGAGGCGCTTGCCATGGGCAAATTTGTAGTTTGTGCTGATCATCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccactttttttgttgattactaatgctgccatttgctgtttgtatttttttagGTACAAGGTTTTCAAAAATCCGAGCATTAGTGATGTCCTATGCACAACAACAGCATAGGCTCTTGCAATGGGGAAATTCGTGATCTGCGCAGAACATCCA
tactaat putative branch site (score: 1)
tattttttt putative PPT
tgtttgtattttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacaagaaactttaaggcaattgtcaaagataattaattctgtattccactttttttgttgattactaatgctgccatttgctgtttgtatttttttagGTACAAGGTTTTCAAAAATCCGAGCATTAGTGATGTCCTATGCACAACAACAGCATAGGCTCTTGCAATGGGGAAATTCGTGATCTGCGCAGAACATCCA
- -caagaaa
- - - - - - - - - - - - -caaagata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgtt