Sequence
atgc intronic sequence ATGC exonic sequence...acatacttcactcatcattagaacaatgtggaggtttataatggttgtgttactaatttagttttttatcctgagtatgttatatccatcatggctgcagATAACAGATGCAGTTGTTGCAGCTCGTATTTTGAATGCCACTCTTGTTGTTCCCAAGTTGGACCAGAAATCTTTTTGGAAGGATAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g44015.1 (Oryza sativa), 3'ss of exon 4
acatacttcactcatcattagaacaa----tgtggaggtttataatggttgtgttactaatttagttttttatcctgagtatgttatatccatcatggctgcagATAACAGATGCAGTTGTTGCAGCTCGTATTTTGAATGCCACTCTTGTTGTTCCCAAGTTGGACCAGAAATCTTTTTGGAAGGATAGCAG
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---tatgtgatccattatgacaccatgttccatgtaactccgtggtagttatgtgtattctgttgttccatatgcataac-tatgaccatcttctgcttttcagATAATTGATGCTGTTGTTGCTGCACGTATCTTAAATGCCACACTTGTTGTTCCCAAATTGGATCAAACATCTTTCTGGAAAGATGCAAG
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g47520.2 (Oryza sativa), 3'ss of exon 4
acatacttcactcatcattagaacaatgtggaggtttataatggttg--tgttactaatttagttttttatcctgagtatgttatatccatcatggctgcagATAACAGATGCAGTTGTTGCAGCTCGTATTTTGAATGCCACTCTTGTTGTTCCCAAGTTGGACCAGAAATCTTTTTGGAAGGATAGCAG
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--gcatcatgttttttttttccacaataattgcctttttttgggtcaaatattcttcaacccataaatgactctcaaagaatgctacttatgtggttttcagATCATAGATGCTGTTGTTGCAGCCCGTATTCTGAATGCAACACTTGTCATTCCCAACCTGGATCAGAAATCCTTCTGGAAAGATGCAAG
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G131699_T01 (Zea mays), 3'ss of exon 4
acatacttcac-tcatcattagaacaatgtggaggt--ttataatggttgtgttactaat--ttagttttttatcctgagtatgttatatccatcatggctgcagATAACAGATGCAGTTGTTGCAGCTCGTATTTTGAATGCCACTCTTGTTGTTCCCAAGTTGGACCAGAAATCTTTTTGGAAGGATAGCAG
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----agtccacatgagtttttttatgctttagtgataattgtaatacttatatgccttgttgttatctttatagacctaat-taacatgtgtattgctctttcagATAATCGATGCTGTTGTTGCTGCACGCATTTTAAATGCCACACTTGTTGTTCCCAAACTAGACCAAGCATCCTTCTGGAAAGATTCAAG
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G48050.1 (Glycine max), 3'ss of exon 3
acatacttcactcatcattagaacaatgtggaggtttataatggttgtgttactaatttagttttttatcctgagta--tgttatatccatcatggctgcagATAACAGATGCAGTTGTTGCAGCTCGTATTTTGAATGCCACTCTTGTTGTTCCCAAGTTGGACCAGAAATCTTTTTGGAAGGATAGCAG
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gcaaccaacatgaatttatt-aataatgtacctgaa-atatgtcatatgctattgctctaaatccaaggagagaccaattaatatgggagttgtggctgcagATAATTGATGCTGTGGTGGCTGCATATCTTTTGAATGCTACTCTTGTTGTTCCAGAGTTGGATCATACATCTTTCTGGAAGGACACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgttactaatttagttttttatcctgagtatgttatatccatcatggctgcagATAACAGATGCAGTTGTTGCAGCTCGTATTTTGAATGCCACTCTTGTTGTTCCCAAGTTGGACCAGAAATCTTTTTGGAAGGATAGCAG
tactaat putative branch site (score: 1)
tactaatttagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatacttcactcatcattagaacaatgtggaggtttataatggttgtgttactaatttagttttttatcctgagtatgttatatccatcatggctgcagATAACAGATGCAGTTGTTGCAGCTCGTATTTTGAATGCCACTCTTGTTGTTCCCAAGTTGGACCAGAAATCTTTTTGGAAGGATAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - cactcat
- - - - - - - - - -agaacaa
- - - - - - - - - - - - - - - - - - - - - ggttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atccatc