Sequence
atgc intronic sequence ATGC exonic sequence...ttattgtttctcctaaaacttgatttgttgaactccagtgagctcattttccttttccctgggttattatttggtttgatttgatttttaaattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 9
-----------------------ttattgtttctcctaaaacttgatttg--ttgaactccagtga-gctcattttccttttccctgggttattatttggtttgatttgatttttaaattct-------acagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
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gtaagttgcaccagatgttgtaaccaaaataattactaagtattagtttgatctgatcattggagttgattgtttcctttataagcaaatccacccctaggctaatatcttctttattctgtggtcaatatagGATATTCAAGAAGCACATGCTGGTCAAATTGTTGCTGTCTTTGGTGTTGATTGTGCGTCAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G056393_T01 (Zea mays), 3'ss of exon 9
-------ttatt-gtttctcctaaaacttgatt--tgttgaactccagtgagctcattttccttttccctgggttattatttggtttgatttgatttttaaattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
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gtaagttgcattagatttagttttcactcaatcagtattgatttccatcagatgaagatcagtgattttttgggtattaat--gtttatatta--ttttgtttgatatagGATATTCAAGAAGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 9
ttattgtttctcc-taaaacttgatttgttgaactccagtgagctcattttccttttccctgggttattatttggtttgatttgattttt--aaattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
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--tttgtttcttgactaaatacattctgaagaatttgaatatattcagttattctctgcc-attttcttacaacttttaattgggttctctcacaatctgcagGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGACTGTGCATCAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 4
ttattgtttctcc-taaaacttgatttgttgaactccagtgagctcattttccttttccctgggttattatttggtttgatttgattttt--aaattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
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--tttgtttcttgactaaatacattctgaagaatttgaatatattcagttattgtctgcc-attttcttacaatttctaattgggttctctcacaatctgtagGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGAATGTGCATCAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S20_94V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------------------------------------------ttattgtttctcctaaaacttgatttgttgaact-ccagtgagctcattttccttttccctgggttattatt-tggtttgatttgattttta---aattcta---cagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG---------------------------------------
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gttagtctgaatctctctccttgtccttttttttgtttctgttttgtttttgtgggttggtgtatcttttgaaagaatgatcaaacttatgctgcttttaggtttctaaa-gttgtgttgctggcgtgct-gttgtgctacaccgtag-ttattatcatgtctctacttacattctgcggagttgtatttcagGACATTCAAGAGGCACATGCTGGAGAAATTGTTGCAGTCTTTGGTGTTGAGTGTTCTTCTGGTGATACTTTTACGGACGGATCTGTGAAGTTTACGATGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71863690|gb|DT012745.1|DT012745EST: GTTCCTCGCTTGGTTCGGATGCATTCTAATGAGATGGAG GACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGAT
genomic: GTTCCTCGCTTGGTTCGGATGCATTCTAATGAGATGGAGgttagttttt ... aattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttccttttccctgggttattatttggtttgatttgatttttaaattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
atttgat putative branch site (score: 5)
ttattatttggtttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattgtttctcctaaaacttgatttgttgaactccagtgagctcattttccttttccctgggttattatttggtttgatttgatttttaaattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - -ctcctaa
- - - - - - - - - - - - - - - aactcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg