Sequence
atgc intronic sequence ATGC exonic sequence...gtaatcagtggctattgtgctatctttatagattgctgcagaagtatcatttgtttgatgtttctactggctaacttgacatatattcttgttcttgtagTATTCTATGAATGGGAATTACCCTTATCACAAATCTTGCTACAAGGAGCACTATCACCCAAAATGTGATGTTTGCAAGCACTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 3'ss of exon 5
gtaatcagtggctattgtgctatctttatagattgctgcagaagtatcatttgtttgatgtttctactggctaacttgacatatattcttgttcttgtagTATTCTATGAATGGGAATTACCCTTATCACAAATCTTGCTACAAGGAGCACTATCACCCAAAATGTGATGTTTGCAAGCACTTT
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-------gtaactcctttgtttacttattaagcagttatccatgtct-gcaagagtaatgtttctatgcttatagtcaaccaatata--tgactatgcagTTCTCCATGTCGGGAAACCATCCATACCATAAAACATGCTACAAGGAGCGCTTTCACCCAAAATGTGATGTCTGCAAGCAATTT
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G017845_T02 (Zea mays), 3'ss of exon 4
gtaatcagtggctattgtgctatctttatagattgctgcagaagtatcatttgtttgatgtttctactggctaacttgacatatattcttgttcttgtagTATTCTATGAATGGGAATTACCCTTATCACAAATCTTGCTACAAGGAGCACTATCACCCAAAATGTGATGTTTGCAAGCACTTT
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---------------------------gtaactttttt-----gt-ttactttttagcagtttctttcaatgtactgaccttaaagccatgct---gcagTTCTCCATGTCCGGGAATCATCCATACCATAAAACTTGCTACAAGGAGCAGTTTCACCCGAAATGTGATGTCTGCAAGCAGTTC
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G08450.1 (Glycine max), 3'ss of exon 5
gtaatcagtggctattgtgctatctttatagattgctgcagaagtatcatttgtttgatgtttctactggctaacttgacatatattcttgttcttgtagTATTCTATGAATGGGAATTACCCTTATCACAAATCTTGCTACAAGGAGCACTATCACCCAAAATGTGATGTTTGCAAGCACTTT
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-------gtgctaacattaccggccacattgcttgttttcata-tatggtttttattctgtacttaatgctttgttttatacatattattatt---gcagTTTTCCACATCTGGGAATTACCCTTATCATAAATCATGCTATAAGGAAAGCTACCATCCAAAATGTGATGTCTGCAAGCACTTC
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G36620.1 (Glycine max), 3'ss of exon 4
----gtaatcagtggctattgtgctatctttatagattgctgcagaagtatcatttgtttgatgtttctactggctaacttgacatatattcttgttcttgtagTATTCTATGAATGGGAATTACCCTTATCACAAATCTTGCTACAAGGAGCACTATCACCCAAAATGTGATGTTTGCAAGCACTTT-
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tgctaacattactggcaacattgcttgttttcctgttttc---ataaatggtttttattctgtacttacact--tttgttttatacatattattatt---gcagtTCTCCACATCTGGGAATTACCCTTACCATAAATCATGCTATAAGGAAAGCTACCATCCAAAATGTGATGTCTGCAAGCACTTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcatttgtttgatgtttctactggctaacttgacatatattcttgttcttgtagTATTCTATGAATGGGAATTACCCTTATCACAAATCTTGCTACAAGGAGCACTATCACCCAAAATGTGATGTTTGCAAGCACTTT
ttcttgttctt CT-rich tract
atatattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcagtggctattgtgctatctttatagattgctgcagaagtatcatttgtttgatgtttctactggctaacttgacatatattcttgttcttgtagTATTCTATGAATGGGAATTACCCTTATCACAAATCTTGCTACAAGGAGCACTATCACCCAAAATGTGATGTTTGCAAGCACTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - tggctat
- - - - - - - - -tgctatc
- - - - - - - - - - - - - - - - -tgctgca