Sequence
atgc intronic sequence ATGC exonic sequence...tgagatatttggctattaaaaattttgaaacttactccatttatagatttgatgcaggataggtaattgattgttagatttacttttctaatctttttagGCAGCTTTCATGGTTCCAACTGAGCTGCTTGCTCTCCAACATTATGAGCAACTCATCAATTTGCTGGAGAATATGGAGGGGGCTGAGTGCAAACCTTCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os02g48100.1 (Oryza sativa), 3'ss of exon 1
tgagatatttggctattaaaaattttgaaacttactccatttatagatttgatgcaggataggtaattgattgttagatttacttttctaatctttttagGCAGCTTTCATGGTTCCAACTGAGCTGCTTGCTCTCCAACATTATGAGCAACTCATCAATTTGCTGGAGAATATGGAGGGGGCTGAGTGCAAACCTTCTA
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ggatatacacgaaaaatgattatcttcctcctagttgtactcttcagttcttcattaatgagatgttagtctaacatataccttgtaaaattatttctagGCTGCTTTCATGGTTCCAACGGAGGTTCTTGCCCTCCAGCATTATGAACATCTAACTTCATTGCTGGAGAAGTTTGATGGAGATGAATGCAAACCAAACA
upper sequence: Vv01s0011g04880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G315176_T02 (Zea mays), 3'ss of exon 3
--------------------------------------------------------------------tgagatatttggctattaaaaattttgaaacttactccatttatagatttgatgcaggataggtaattgattgttagatttacttttctaat-ctttttagGCAGCTTTCATGGTTCCAACTGAGCTGCTTGCTCTCCAACATTATGAGCAACTCATCAATTTGCTGGAGAATATGGAGGGGGCTGAGTG--CAAACCTTCTA
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gtatcatactactgtgcattaaagaggctgccagtgaaatccagcttgcttagttatattaagttgtttacgccaatcggagatgagaaaacaatcaattttgttcctgtgtcactttcttcagtcaggagttacagttcaatatattcacttccacatttctttctagGCTGCTTTCATGGTTCCAACAGAGGTGCTTGCTGTCCAGCATTATGAACACCTAACTTCATTGCTAGAGAAGTTTGATGGAGATGAGAAACCAAATATTG--
upper sequence: Vv01s0011g04880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G21660.1 (Glycine max), 3'ss of exon 2
tgagatatttggctattaaaaattttgaaacttactccatttatagatttgatgcaggataggtaattgattgttagatttacttttctaatct--ttttagGCAGCTTTCATGGTTCCAACTGAGCTGCTTGCTCTCCAACATTATGAGCAACTCATCAATTTGCTGGAGAATATGGAGGGGGCTGAGTGCAAACCTTCTA
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tcatatttacacgtgtgtgatgggtagagaattcccaggggtatgaatttcat-tattctttata-ttaatgttaatattaggttttcttgtctcattatagGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCATTTGCTTAAATTGCTCGAAAACTTGGATGAGGTCGTGTTCAAGCCAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttgatgcaggataggtaattgattgttagatttacttttctaatctttttagGCAGCTTTCATGGTTCCAACTGAGCTGCTTGCTCTCCAACATTATGAGCAACTCATCAATTTGCTGGAGAATATGGAGGGGGCTGAGTGCAAACCTTCTA
ttctaat putative branch site (score: 2)
cttttctaatcttttt CT-rich tract
atttacttttctaatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagatatttggctattaaaaattttgaaacttactccatttatagatttgatgcaggataggtaattgattgttagatttacttttctaatctttttagGCAGCTTTCATGGTTCCAACTGAGCTGCTTGCTCTCCAACATTATGAGCAACTCATCAATTTGCTGGAGAATATGGAGGGGGCTGAGTGCAAACCTTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - -tggctat
- - - - - - - - taaaaat
- - - - - - - - - - - - - - - - -actccat
- - - - - - - - - - - - - - - - - - - - - - - - - gatgcag