Sequence
atgc intronic sequence ATGC exonic sequence...acttttgaattacatattgattttaaatgaagtttccttttttattaattctaaatgaagcttcccaccattgcatgatcgtaatttcttcaattttcagGGTATATATGGTTATCCCATTGAGATTCAAGCCCTATTCTATATGGCATTAAGATGTGCTCTCCAAATGCTCAAGCCAGAGGGCGAAGGGAAGGATTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G115451_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g07440.2 (Oryza sativa), 3'ss of exon 3
---------acttttgaattacatattgattttaaatgaagtttccttttttattaattctaaatgaagcttcccaccattgcatgatcgtaatttcttcaattttcagGGTATATATGGTTATCCCATTGAGATTCAAGCCCTATTCTATATGGCATTAAGATGTGCTCTCCAAATGCTCAAGCCAGAGGGCGAAGGGAAGGATTTCA
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gaagttctactttttgaactacaattttataattggtga--ttgagatccttatca---ttacatga--ctgtttggc-tcaaatg-ttaaatctactattatttccagGGTATATATGGTTATCCTATTGAGATCCAAGCTCTATTCTACATGGCGTTGAGATGTGCTCTGCAGATGCTTAAGCCAGATGGTGAAGGGAAGGATTTCA
upper sequence: GRMZM2G115451_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G35890.2 (Glycine max), 3'ss of exon 3
acttttgaattacatattgattttaaatgaagtttccttttttattaattctaaa-----tgaagcttcccaccattgcatgatcgtaatttcttcaattttcagGGTATATATGGTTATCCCATTGAGATTCAAGCCCTATTCTATATGGCATTAAGATGTGCTCTCCAAATGCTCAAGCCAGAGGGCG---AAGGGAAGGATTTCA
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--tttcaagctcc---ctggagttaagctttcattcttatttgactgattttgaagaacttgcatattttattaattgtttcgtcctcttccttttttcttgcagGGTATTTATGGTTATCCAATAGAGATTCAAGCACTTTTCTTCATGGCATTGAGATGTGCTTTGTCAATGCTGAAACAGGATGACGCCGAAGGGAAGGAAT---
upper sequence: GRMZM2G115451_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G31730.2 (Glycine max), 3'ss of exon 3
acttttgaattacata-ttgattttaaatgaagtttcctt-ttttattaattctaaatgaagcttcccaccattgcatgatcgtaatttcttcaatttt-cagGGTATATATGGTTATCCCATTGAGATTCAAGCCCTATTCTATATGGCATTAAGATGTGCTCTCCAAATGCTCAAGCCAGAGGGCG---AAGGGAAGGATTTCA
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--tcatgttccctggagttaagctttcatgtatttggctgattttgaagaatttgcat-attttattaattgtttcttctgcttcctttcttttttcttgcagGGCATTTATGGTTATCCAATAGAGATTCAAGCACTTTTCTTCATGGCATTGAGATGTGCTTTGTCAATGCTGAAACAGGATGACGCCGAAGGAAAGGAAT---
upper sequence: GRMZM2G115451_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0072g01040.t01 (Vitis vinifera), 3'ss of exon 3
acttttgaattacatattgattttaaatg--aagtttccttttttattaattctaaatgaagcttcccaccattgcatgatcgtaatttcttcaatttt-cagGGTATATATGGTTATCCCATTGAGATTCAAGCCCTATTCTATATGGCATTAAGATGTGCTCTCCAAATGCTCAAGCCAGAGGGCGAAGGGAAGGATTTCA
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gttcattattttcaagagctttgtagttgtcagaaagtacatattaacatgtatgaatca--catgttaacac-gtttgatcacatggattttattttgacagGGTATTTATGGTTATCCAATTGAAATTCAAGCACTTTTCTTCATGGCACTGAGATGTGCTTTGGCAATGCTAAAACAAGACTCTGAAGGTAAAGAATGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattctaaatgaagcttcccaccattgcatgatcgtaatttcttcaattttcagGGTATATATGGTTATCCCATTGAGATTCAAGCCCTATTCTATATGGCATTAAGATGTGCTCTCCAAATGCTCAAGCCAGAGGGCGAAGGGAAGGATTTCA
ttctaaa putative branch site (score: 2)
tttcttcaattttc putative PPT
taatttcttcaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttttgaattacatattgattttaaatgaagtttccttttttattaattctaaatgaagcttcccaccattgcatgatcgtaatttcttcaattttcagGGTATATATGGTTATCCCATTGAGATTCAAGCCCTATTCTATATGGCATTAAGATGTGCTCTCCAAATGCTCAAGCCAGAGGGCGAAGGGAAGGATTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - aaatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatga