Sequence
atgc intronic sequence ATGC exonic sequence...cttgaccaaatacgattaaagtgaggcttaatagtccatcgttttttcctgttaactttactaatgcatctttttttttcttctatgatttcacgggcagCTGCTTTTAACTCCCAAAGATCTAAGTTTTGTGGGCTATACATACAAGAATTTTGATGCTATCAAAGCAGCACGCCATTCTTTTGGTATGCGACATTTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G044531_T01 (Zea mays), 3'ss of exon 10
--cttgaccaaatacgattaaagtgaggcttaatagtccat-cgttttttcctgttaactttactaatgcatctttttttttcttctatgatttcacgggcagCTGCTTTTAACTCCCAAAGATCTAAGTTTTGTGGGCTATACATACAAGAATTTTGATGCTATCAAAGCAGCACGCCATTCTTTTGGTATGCGACATTTGT
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ctttcatatgcccataggtaggcatcaatgtaacaaactacatgccattatttgtttatttcacca-tgaag-ttgatcattgttttggaatgttgttg-cagATGATGCTTAATTCTAAAGATCTTAGCTTTGTGGGGTATACATACAAGAATTTTGAGGCCGTGAAAGGTTTGCATCAGTTTGCAG---------------
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G167554_T01 (Zea mays), 3'ss of exon 7
-cttgaccaaatacgattaaagtgaggctta---atagtccatcgttttttcctgttaactttactaatgcatctttttttttcttctatgatttcacgggcagCTGCTTTTAACTCCCAAAGATCTAAGTTTTGTGGGCTATACATACAAGAATTTTGATGCTATCAAAGCAGCACGCCATTCTTTTGGTATGCGACATTTGT
||| ||| | | | | | || ||| || |||||||| || |||| | | | |||| | | | ||||| | || | | | |||||||||| || |||||||| ||||||||||| || |||||||| | |||||| | |||
tcttagtagaatttatgttcatttcgtcctagatatattcatctattttttccccttggctttctcagccttatgtatcttttatggaacaacttcacagA----TGATGCTGAACTCCAAAGATCTGAGCTTTGTGGGGTATACATACAAAAACTTTGATGCAGTGAAAGCAATAAAAATTTCAG------------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcctgttaactttactaatgcatctttttttttcttctatgatttcacgggcagCTGCTTTTAACTCCCAAAGATCTAAGTTTTGTGGGCTATACATACAAGAATTTTGATGCTATCAAAGCAGCACGCCATTCTTTTGGTATGCGACATTTGT
tactaat putative branch site (score: 1)
tctttttttttcttct putative PPT
tttttttttcttctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgaccaaatacgattaaagtgaggcttaatagtccatcgttttttcctgttaactttactaatgcatctttttttttcttctatgatttcacgggcagCTGCTTTTAACTCCCAAAGATCTAAGTTTTGTGGGCTATACATACAAGAATTTTGATGCTATCAAAGCAGCACGCCATTCTTTTGGTATGCGACATTTGT
- -gaccaaa
- - - - - - - - -aaagtga
- - - - - - - - - - - - - - - - - - - - - - -ttcctgt