Sequence
atgc intronic sequence ATGC exonic sequence...aaaatggagttaattttggagagggacagggtttagggttattaagcattaggatctttctgactctggttttgcatttttaaatgcacttattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAAATGTTGCTGGTGAAGGAGAGGAGCTGAGAAATATTCTACTATCACAAGGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g06470.1 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------------------------------------------aaaatggagttaattttggagagggacagggtttagggttatt----aagcattaggatct---ttctgactctggttttgc---atttttaaatgcact-----tattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAAATGTTGCTGGTGAAGGAGAGGAGCTGAGAAATATTCTACTATCACAAGGAGC
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gttagtttcatctctcttgttggttgaaattaaataattttcttcaatgctcatcttcattcccattaggaagatattgctatatgttcctgtatgcgtttctcaagaatgatgtttgtagatatttttctactatttagtttgaaatcagagctttgactatgctaaaaatttaattgagctacctatgttggttagAAAAGAGCTCCACACTTGTTGCCGAGCAATGTGCATGGGCCATTGGTAATGTTGCTGGTGAAGGAGCAGAGCTGAGAAGCACATTACTTGCACAAGGTGC
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G165692_T01 (Zea mays), 3'ss of exon 4
------------------------------aaaatggagttaattt---tggagaggga----cagggtttagggttattaagcattaggatctttctgactctggttttgcatttttaaatgcacttattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAAATGTTGCTGGTGAAGGAGAGGAGCTGAGAAATATTCTACTATCACAAGGAGC
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gttagttttcttttatttgttggtcaaatgtacatattgtccatttccattcacattaatctccagaatacacaattattaagaatggctactaggttgac-ctcctatagaagtcttatcttcctatgtctgttagAGAACAGCTCTACACTTGTCGCGGAACAATGTGCATGGGCCATTGGTAATGTTGCTGGTGAAGGAGCAGAGCTGAGAAACACATTACTTGCTCAAGGTGC
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G20090.1 (Glycine max), 3'ss of exon 4
aaaatggagttaattttggagagggac------agggtttagggttattaagcattaggatctttctgactctggttttgcatttttaaatgcacttattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAAATGTTGCTGGTGAAGGAGAGGAGCTGAGAAATATTCTACTATCACAAGGAGC
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------ccatcattttataacaaagttttcttgaaggttgagactaatttaataattttagcatttacagttaccttttaaattcatgaatgatcctattttgcagAAAAGAGCTACCCACCTGTTGCTGAACAGTGTGCTTGGGCGCTGGGAAATGTGGCTGGTGAAGGTGAAGAGTTGAGGAATGTTCTGCTAGTTCAAGGGGC
upper sequence: Vv08s0040g02290.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G03070.1 (Arabidopsis thaliana), 3'ss of exon 4
aaaatggagttaattttggagagggacagggtttagggttattaagcattaggatctttctgactctggttttgcatttttaaatgcacttattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAAATGTTGCTGGTGAAGGAGAGGAGCTGAGAAATATTCTACTATCACAAGGAGC
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--------gtttgttgtactggccaaccaagtctgttattactc--tatt--gtttttgttggattagatttcatatgattccaagtttatatt---cagAAAAGAGCTCCGCACCGGTGGCTGAGCAGTGCGCATGGGCAATTGGTAATGTTGCCGGTGAAGGAGAAGATTTGAGAAATGTTCTTTTGTCTCAAGGGGCMapped 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|161714602|gb|FC063574.1|FC063574EST: AACAAAAGCTTTGTTGCCTGCATTACCACTGCTTATTGCTCATTTGGGAG AAA-GAGTTCCC-TCCTGT-GCTGA-CAGTGTGCATGG-CGT-GGGAA
genomic: AACAAAAGCTTTGGTGCCTGCATTACCACTGCTTATTGCTCATTTGGGAGgtttgtaatg ... tattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcattaggatctttctgactctggttttgcatttttaaatgcacttattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAAATGTTGCTGGTGAAGGAGAGGAGCTGAGAAATATTCTACTATCACAAGGAGC
ttctgac putative branch site (score: 2)
ttttgcatttttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatggagttaattttggagagggacagggtttagggttattaagcattaggatctttctgactctggttttgcatttttaaatgcacttattgtgtagAAAAGAGTTCCCCTCCTGTTGCTGAGCAGTGTGCATGGGCGTTGGGAAATGTTGCTGGTGAAGGAGAGGAGCTGAGAAATATTCTACTATCACAAGGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
-aaatgga
- - - - - - - - - - - - - - - - - - - - -ttaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gactctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcac