Sequence
atgc intronic sequence ATGC exonic sequence...atcacttaactctcataattatgtcttcttaattttatttttgtttttgcgagttgttggttgggagttttgatttgtattgtggacacattggctgcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAAGTAGAGAGGAAGCTTCTTGATCTACAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G044527_T01 (Zea mays), 3'ss of exon 9
---------atcacttaactctcataattatgtct-tcttaattttatttttgtttttgcgagt-----tgttggttgggagttttgatttgtattgtggacacattggct-----------gcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAAGTAGAGAGGAAGCTTCTTGATCTACAGCAG
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gtatgtggtctaccataggtcatattactagttatgtggtatgtttgtttcaggtaacaggtctagctatgtctgtttacaacattgatttgt--tatagatatgttctttttttgacattcacagATACTGGACACAGTTGCTGAAATACAGGAGCGACATGATGCTGTAAGGGATCTAGAGAGGAAGCTTTTGGAGTTGCAACAG
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G044527_T02 (Zea mays), 3'ss of exon 9
---------atcacttaactctcataattatgtct-tcttaattttatttttgtttttgcgagt-----tgttggttgggagttttgatttgtattgtggacacattggct-----------gcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAAGTAGAGAGGAAGCTTCTTGATCTACAGCAG-------------------
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gtatgtggtctaccataggtcatattactagttatgtggtatgtttgtttcaggtaacaggtctagctatgtctgtttacaacattgatttgt--tatagatatgttctttttttgacattcacagATACTGGACACAGTTGCTGAAATACAGGAGCGACATGATGCTGTAAGGGATCTAGAGAGGAAGCTTTTGGAGTTGCAACAGGTGATGCTTTTTTTTGCAT
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G330772_T01 (Zea mays), 3'ss of exon 9
-----------------atcacttaactc--tcataattatgt--cttcttaattttatttttgtttttgcgagttgttggttgggagttttgatttgtattgtggacacattggct-----------gcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAAGTAGAGAGGAAGCTTCTTGATCTACAGCAG
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gtatgtggtctaccatagttacataggtcattactagtcatgaggtatattggtttcaggcatcaggtctagctatgtctgtttacaacattgatttgt--tataaatacgttacctttttgacatttgcagATACTAGACACTGTTGCTGAAATACAGGAGCGACATGATGCTGTAAGGGATCTAGAGAGGAAGCTTCTGGAGTTGCAACAG
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 10
---------------------------------------------atcacttaactctcataattatgtcttcttaattttatttttgttt-----ttgcgagttgttggt--tgggagttttgatttgtattgtggacacattggctg-----------cagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAAGTAGAGAGGAAGCTTCTTGATCTACAGCAG
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gttcatatcttgctcttgctttctccttcaattcctcctcaaatgcatattcaactttttatattatccaatattaacatgaatatcattcactcatctaaacccaccattcatacaaacctaccttgccattgtacactcatagattgagttatctttgtagATAATGGACACCTTGGCTGAAATACAAGAGCGACATGAAGCAGTTAGAGATGTTGAGAGAAAACTTCTTGATTTACAACAGMapped 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|71857722|gb|DT006777.1|DT006777EST: ACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG ATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAG
genomic: ACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAGgtttgtctct ... ttggctgcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAG
EST:
gi|110419016|gb|EC985205.1|EC985205EST: ACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG ATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAA
genomic: ACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAGgtttgtctct ... ttggctgcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgcgagttgttggttgggagttttgatttgtattgtggacacattggctgcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAAGTAGAGAGGAAGCTTCTTGATCTACAGCAG
ttttgat putative branch site (score: 4)
ttttgatttgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcacttaactctcataattatgtcttcttaattttatttttgtttttgcgagttgttggttgggagttttgatttgtattgtggacacattggctgcagATAATGGACACATTGGCTGAAATTCAAGAGCGACATGATGCAGTTAGAGAAGTAGAGAGGAAGCTTCTTGATCTACAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - actctca
- - - - - - - - - - -tgtcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtgga