Sequence
atgc intronic sequence ATGC exonic sequencegtacactcttgcattccaacatcaatgtctgagattttattctaggtttcattaaaagtcttcttctttttgttcctcttgtgctactgctagGGTTTAACGAAGCTTCTGGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G121262_T01 (Zea mays), 3'ss of exon 2
-------------------gtacactct-tgcattccaacatcaatgtctgagattttatt-ctaggtt-----tcattaaaagtcttcttctttttgttcctcttgtgctactgctagGGTTTAACGAAGCTTCTGGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGA
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gtgcgtgcgcggtgatctcgttctccctctaccttcc--ttttgattccggagttgatgccgcctggtggcgaatcggctgacgggctctgcctcgtttcgcgcattcggcgtgtgtagGGTTTGACGAAACTGCTGGCGGACAATGCGCCCAAGGCGATGAAGGAGCAGAAGTTCGAGAGCTACTTCGGCCGCAAAATCGCCGTCGACGCCAGCATGA
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G22190.3 (Glycine max), 3'ss of exon 1
gtacactcttgcattccaacatcaa--tgtctgagattttattctaggtttcattaaaagtcttcttctttttgttcctcttgtgctactgctagGGTTTAACGAAGCTTCTGGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGA
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------gtgttcattttttcatcaacctatccctatttttccctttcggtttattattcttgatattaattaggttaatgccgattattttctagGGTTTAACAAAGCTTTTGGCGGACAATGCCCCGAAGTCCATGAAGGAGAACAAATTCGAGAGCTACTTCGGTCGCAAGATCGCCATTGACGCTAGCATGA
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G28200.2 (Glycine max), 3'ss of exon 1
--gtacactcttgcattccaacatcaatgtctgagattttattctaggtt-tcattaaaagtcttc-ttctttttgttcctcttgtgctactgctagGGTTTAACGAAGCTTCTGGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGA
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gtgttcactttttca--ccatcct--atccctctatttctctttcaaattatcattctcgatattaattatgttaatgccgattgtttt----ttagGGTTTAACAAAGCTTTTAGCGGACAATGCCCCGAAGTCCATGAAGGAGAACAAATTCGAGAGCTACTTTGGTCGCAAGATCGCTATTGACGCTAGCATGA
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S456_8V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------------------------------------------gtacactcttgcattccaacatcaatgtctgag--attt---tattctaggtttcattaaaagtcttcttctttttgttcctcttg--tgctactgctagGGTTTAACGAAGCTTCTGGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGA
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gtgaggagatctagtctgcgttgctcgctttttgttgcgattccgtggctttttgtttcacctcgccttctttttacccttcc--tccaggttgattttttaagtgagttaggcatgtaaggatggagtcgtatgatacagagtttttttaatgtagaattctgtttacagGGGTTGACGAAGCTGCTAGCGGACAATGCACCTGATTCGATGAAAGAGCAAAAATTTGAGAGCTACTTTGGTCGAAAAATAGCTATCGATGCCAGCATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attctaggtttcattaaaagtcttcttctttttgttcctcttgtgctactgctagGGTTTAACGAAGCTTCTGGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGA
tcttcttctttttgtt CT-rich tract
tttcattaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacactcttgcattccaacatcaatgtctgagattttattctaggtttcattaaaagtcttcttctttttgttcctcttgtgctactgctagGGTTTAACGAAGCTTCTGGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT