Sequence
atgc intronic sequence ATGC exonic sequence...tactatctagcagccagtgtctagtgaatggtggtctcatttctgggttgaccattaactctactatcaaatagtgataattgtttttatcaattggtagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACTACTATTAATAGCGATCATGGAGTTGAATTTGAAGGTGTTGTTATTGCTCTCTTCTATCTGCTAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 3'ss of exon 3
tactatctagcagccagtgtctagtgaatggtggtctcatttctgggttgaccattaactctactatcaaatagtgataattgtttttatcaattggtagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACTACTATTAATAGCGATCATGGAGTTGAATTTGAAGGTGTTGTTATTGCTCTCTTCTATCTGCTAACA
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--------------gtgagcacattgaactttgttcttctctattg-ttgac-attttctattcaacttgac--ttatggaaatctttctct----gtagTGAGAATATCATCTGGAAGGCATTTAGCCCCACAACTATCAACAGTGGCCGTGGTGCTGAGTTCGAGGGGGCTGTCATTGCATTGTTCCATCTGTTGATT
upper sequence: Vv10s0003g00710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G130987_T02 (Zea mays), 3'ss of exon 3
--tactatctagcagccagtg-tctagtgaatggtggtctcatttctgggttgaccattaactctact--atcaaatagtgataattgtttttatcaattggtagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACTACTATTAATAGCGATCATGGAGTTGAATTTGAAGGTGTTGTTATTGCTCTCTTCTATCTGCTAACA
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gtaagcatgttggatttaatccttttattgatgttgatattagat-tgatgtaatgttctgttccacttagtcttataataa-gactgctttcat------gtagTGAGAATATCATCTGGAAGGCATTTAGCCCCACAACCATCAACAGTGGTCGTGGCGCTGAATTCGAAGGGGCTGTCATTGCACTGTTCCATCTGTTGATT
upper sequence: Vv10s0003g00710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S114_48V6.1 (Physcomitrella patens), 3'ss of exon 3
tactatctagcagccagtgtctagtgaatggtggtctcatttctgggttgaccattaactctactatcaaatagtgataat-tgtttttatcaattg---gtagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACTACTATTAATAGCGATCATGGAGTTGAATTTGAAGGTGTTGTTATTGCTCTCTTCTATCTGCTAACA
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--cagcgcagcaattacattttattta--ggtacacgtagtcctggtcctctgatttacttagtgaactgatcaagggaatctgctaatgttgatttctcgcagTGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCGTGGAGCTGAGTTCGAGGGCGCTGTTATTGCTCTCTTCCACCTTCTTTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttgaccattaactctactatcaaatagtgataattgtttttatcaattggtagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACTACTATTAATAGCGATCATGGAGTTGAATTTGAAGGTGTTGTTATTGCTCTCTTCTATCTGCTAACA
cattaac putative branch site (score: 2)
tttttatc putative PPT
aaatagtgataattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactatctagcagccagtgtctagtgaatggtggtctcatttctgggttgaccattaactctactatcaaatagtgataattgtttttatcaattggtagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACTACTATTAATAGCGATCATGGAGTTGAATTTGAAGGTGTTGTTATTGCTCTCTTCTATCTGCTAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - -gcagcca
- - - - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - gggttga
- - - - - - - - - - - - - - - - - - - - - - - - - - cattaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcaaat