Sequence
atgc intronic sequence ATGC exonic sequence...taattctttccaatgccactgcttgcctgagaaactgcactttgtagtttgtttgtttttgataaatcgtggatctgatgtctgggttgtgtattcacagGTTCTCGAGCTTGCTGGCAATGCTGCGAGGGACAACAAGAAGAGTAGAATCGTTCCCCGGCACATTCAGCTTGCTGTGAGGAATGATGAGGAGTTGAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00970.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S188_35V6.1 (Physcomitrella patens), 3'ss of exon 1
--taattctttccaatgccactgcttgcctgagaaactgcactt-tgtagtttgtttgtttttgataa-atcgtggatctgatgtctgggttgtgtattcacagGTTCTCGAGCTTGCTGGCAATGCTGCGAGGGACAACAAGAAGAGTAGAATCGTTCCCCGGCACATTCAGCTTGCTGTGAGGAATGATGAGGAGTTGAGCA
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ttcgtccctctccaattgaagta--tatttcattctctggaagggtgcaagttggttaagatcgttagtaacgtgtgcctaac-tttagaacat-tatgcgtagGTTCTTGAGCTGGCTGGAAATGCTGCGAGAGACAACAAGAAGAATCGTATCGTCCCTCGCCACATCCAGCTAGCGGTGCGAAACGATGAGGAGCTAAGTAMapped 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|110396126|gb|EC961803.1|EC961803EST: CTGGCGCTCCCGTTTATCTCTCCGCCGTTCTCGAGTACCTTGCGGCTGAG GTTCTCGAGCTTGCTGGCAATGCTGCGAGGGACAACAAGAAGAGTAGAATC
genomic: CTGGCGCTCCCGTTTATCTCTCCGCCGTTCTCGAGTACCTTGCGGCTGAGgttggtgtct ... gtattcacagGTTCTCGAGCTTGCTGGCAATGCTGCGAGGGACAACAAGAAGAGTAGAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttgtttgtttttgataaatcgtggatctgatgtctgggttgtgtattcacagGTTCTCGAGCTTGCTGGCAATGCTGCGAGGGACAACAAGAAGAGTAGAATCGTTCCCCGGCACATTCAGCTTGCTGTGAGGAATGATGAGGAGTTGAGCA
atctgat putative branch site (score: 4)
tttgtttttgataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattctttccaatgccactgcttgcctgagaaactgcactttgtagtttgtttgtttttgataaatcgtggatctgatgtctgggttgtgtattcacagGTTCTCGAGCTTGCTGGCAATGCTGCGAGGGACAACAAGAAGAGTAGAATCGTTCCCCGGCACATTCAGCTTGCTGTGAGGAATGATGAGGAGTTGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - caatgcc
- - - - - - - - - - -cttgcct
- - - - - - - - - - - - - - gagaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggttgt