Sequence
atgc intronic sequence ATGC exonic sequencegtggccaatggtgccttgtgttgtctaatagttattgtagcaactctgttttaaaatattaatgtaaacttgtgttaatatgctttattatgattttttattttttttttgtaatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGGTGTTTCCATTGGAACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ36627 (Selaginella moellendorffii), 3'ss of exon 3
gtggccaatggtgccttgtgttgtctaatagttattgtagcaactctgttttaaaatattaatgtaaacttgtgttaatatgctttattatga---ttttttattttttttttgtaatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGGTGTTTCCATTGGAACC
|| | || || || | | | ||| |||||| | || || || ||||| || || ||||| ||||||| || |||||||| |||||||||||||| ||||||||
-------------------------------------------------------------------------gtaagtagactataactcaaacgtcgctaattcttttttcgactgatcttagATACTGTGTGGTCTTTGATCCTCTGGATGGCTCGTCTAACATCGACTGTGGTGTTTCGATTGGAACT
upper sequence: Vv18s0072g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ04554 (Selaginella moellendorffii), 3'ss of exon 4
gtggccaatggtgccttgtgttgtctaatagttattgtagcaactctgttttaaaatattaatgtaaacttgtgttaatatgctttattatga---ttttttattttttttttgtaatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGGTGTTTCCATTGGAACC
|| | || || || | | | ||| |||| | | || || || ||||| ||||| ||||| ||||||| || |||||||| ||||||||||| || ||||||||
-------------------------------------------------------------------------gtaagtaaactataactcaaacgtcgctaattcttttctcgactgatcttagATACTGTGTGGTTTTTGATCCTCTGGATGGCTCGTCTAACATCGACTGTGGTGTCTCGATTGGAACT
upper sequence: Vv18s0072g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ18090 (Selaginella moellendorffii), 3'ss of exon 4
gtggccaatggtgccttgtgttgtctaatagttattgtagcaactctgttttaaaatattaatgtaaacttgtgttaatatgctttattatga---ttttttattttttttttgtaatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGGTGTTTCCATTGGAACC
|| | || || || | | | ||| |||| | | || || || ||||| || || ||||| ||||||| || |||||||| |||||||||||||| ||||||||
-------------------------------------------------------------------------gtaagtaaactataactcaaacgtcgctaattcttttctcgactgatcttagATACTGTGTGGTCTTTGATCCTCTGGATGGCTCGTCTAACATCGACTGTGGTGTTTCGATTGGAACTMapped 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|38516542|gb|CF983717.1|CF983717EST: TCTGAAGAGGATGAGGAAGCAACAATTGTGGAGCCATCTAAGCGTGGAAG GTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGG
genomic: TCTGAAGAGGATGAAGAAGCAACAATTGTGGAGCCATCTAAGCGTGGAAGgtggccaatg ... aatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGG
EST:
gi|110361485|gb|EC924959.1|EC924959EST: TCTGAAGAGGATGAGGAAGCAACAATTGTGGAGCCATCTAAGCGTGGAAG GTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGG
genomic: TCTGAAGAGGATGAAGAAGCAACAATTGTGGAGCCATCTAAGCGTGGAAGgtggccaatg ... aatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgtgttaatatgctttattatgattttttattttttttttgtaatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGGTGTTTCCATTGGAACC
tgttaat putative branch site (score: 3)
ttaatatgctttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggccaatggtgccttgtgttgtctaatagttattgtagcaactctgttttaaaatattaatgtaaacttgtgttaatatgctttattatgattttttattttttttttgtaatattgcagGTATTGTGTTGTTTTCGATCCCTTGGATGGATCCTCTAACATTGACTGTGGTGTTTCCATTGGAACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA