Sequence
atgc intronic sequence ATGC exonic sequence...ttttttatttgaatctgaaatgggacctagcctagtagtaggattttcagcatgtatgatgtatctaacctgcttgttttcttttttaaaatttatgcagGTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATGGAGTTATTCCCTTCTAAAGTTTCAAAGGCTGTTTTCGTTGCTGCAGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g41230.1 (Oryza sativa), 3'ss of exon 2
--ttttttatttgaatctgaaatgggacctagcctagtagtaggattttcagcatgtatgatgtatctaacctgcttgttttcttttttaaaatttatgcagGTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATGGAGTTATTCCCTTCTAAAGTTTCAAAGGCTGTTTTCGTTGCTGCAGCAA
| || | ||| | | |||| ||| || || |||| ||| ||| | || | |||| ||| | |||||||| |||||||||||||||||||| ||||| |||||||| ||| |||||| | || || || |||||| | |||||||||||| || ||||||||
cagcataggattattcttcgaatagatttttaatgtatagttcgataaacatcagagtccctgtaa-taatatgcattttgattcttttgttatt-acacagGTGATTTTGGTTGGACATGATTTTGGCGGTGCTTGTATATCCTACGCAATGGAGATGTTTCCATCAAAAGTTGCGAAGGCTGTTTTCCTTTGTGCAGCAA
upper sequence: Vv14s0068g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G27210.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------ttttttatttgaatctga---aatgggacctagcctagtagtaggattttca-gcatgtatgatgtatctaacctgcttgttttcttttttaaaatttatgcagGTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATGGAGTTATTCCCTTCTAAAGTTTCAAAGGCTGTTTTCGTTGCTGCAGCAA
| | | ||| |||| | | || | || |||| | || | | || || | ||| ||||| | |||| ||||||| |||||||||||||||||||| || | ||||||||| || |||||| | || ||| ||| |||| |||||||| || ||||||||||||
gtacttggaaagctttctatttttataactaatggattgatttattctatccttaattccttattatatatctctattggctctgttccatccttattacatctgagaataacttttttgtgaattttctttccatttattccttacttttcttttttggattcttatcaagGTGATCTTGGTTGGACATGATTTTGGAGGGGTATGTATATCATATGCAATGGAGATGTTTCCTCTTAAGATTTCCAAGGCTGTCTTTATTGCTGCAGCAA
upper sequence: Vv14s0068g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G29770.1 (Arabidopsis thaliana), 3'ss of exon 2
ttttttatttgaatctgaaatgggacctagcctagtagtaggattttcagcatgtatgatgtatctaacctgcttgttttcttttttaaaatttatgcagGTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATGGAGTTATTCCCTTCTAAAGTTTCAAAGGCTGTTTTCGTTGCTGCAGCAA
|| | ||| | || | | | | ||| | | | | | | | || || | | | || | ||| || | ||||||||||||| || || ||||||||||| ||||||||||| || ||||| | || ||||| || |||| || || |||||| | |||||||| |
-gttctgtttctctttgcattcatcttttactcc---------tttcccttttatttcgtctttgaaaattggtagaatgtattatgtaaacttgt--agGTGATATTGGTCGGTCACGATTTTGGTGGAGCATGTATATCTTATGCTATGGAACTCTTTCCTTCAAAGATTTCGAAAGCGGTTTTCCTCGCTGCAGCGAMapped 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|110688498|gb|EE067122.1|EE067122EST: ATGCGAAGCCAGTCACAGATTTTCTTGAAAAACTTGCTGATGGGGAAAAG GTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATG
genomic: ATGTGAAGCCAGTCACAGATTTTCTTGAAAAACTTGCTGATGGGGAAAAGgtgccattct ... atttatgcagGTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcagcatgtatgatgtatctaacctgcttgttttcttttttaaaatttatgcagGTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATGGAGTTATTCCCTTCTAAAGTTTCAAAGGCTGTTTTCGTTGCTGCAGCAA
atctaac putative branch site (score: 2)
ttgttttcttttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttttatttgaatctgaaatgggacctagcctagtagtaggattttcagcatgtatgatgtatctaacctgcttgttttcttttttaaaatttatgcagGTGATATTGGTTGGACATGATTTTGGTGGTGCATGTATATCGTACATGATGGAGTTATTCCCTTCTAAAGTTTCAAAGGCTGTTTTCGTTGCTGCAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - -cctagcc
- - - - - - - - - - - - - - - - - - - - - - - - -gcatgta