Sequence
atgc intronic sequence ATGC exonic sequencegtgagtatgattctctatagcatttttatggtttatcatgaatgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 12
gtgagtatgattctctatagcatttttatggtttatcatgaatgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
||||||| | || | | ||| | ||| || | || | || | || |||| || || | || ||||| | |||||||| || ||||| || || || |||||||||||||| ||||| |||||||| || ||||||| ||||||| || || ||||| || ||| ||||||
gtgagtacatgcatata-attaagtttgtcatttttcttatgccta----taaa-----agttaatgct--aacttctaatataatgtta--tgcagGACTACAACGAGAAGCCTGATTACGGTCGTTGTGTTGCAATTGTGGCATCTGCTTCCTTGAGGGAAATGATAAGGCCGGGGGCTTTAGCCATTATATCAC
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G069410_T01 (Zea mays), 3'ss of exon 4
gtgagtatg-attctctatagcatttttatggtttatcatgaatgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
||||||| | | || || || | | | ||| || | || | | |||| || | | | | |||||||| |||||||| || || ||||| || |||||||| ||||| ||||||||||| |||| || |||||||| || || ||| | || ||| ||||||
gtgagtacatgattaccatgaagttcttcagtccttttatgcttggaaaagcagatgctaa-------catgtaacaatatcatc----------cagGACTACAAAGAGAAGCCGGATTATGGACGCTGTGTTGCAATTGTGGCATCTGCATCCTTGAGAGAAATGATAAAGCCTGGAGCTCTAGCAATTATATCAC
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 12
gtgagtatgattctctatagcatttttatggtttatcatgaatgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
|||||| || | | || || | | ||||| | | || | |||||||| || || | | || | ||| || |||||| || || ||||||||||| |||||||| |||||||| |||||||||||||| || | || |||||||||||||| ||||||||||| || | ||||
gtgagtttgggtttgtaaagtaatattatg-tatgcca---gtttaggttttgatcttctctctttt-------tttcccttttatgcttttgacagGATTACAAGGAGAAACCAGATTATGGTCGCTGTGTTGCTATTGTAGCATCTGCGTCGTTAAGAGAGATGATAAAACCTGGTGCTTTGGCAATCATTTCAC
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G24120.1 (Glycine max), 3'ss of exon 11
gtgagtatgattctctatagcatttttatggtttatcatgaatgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
|||||| || | | || || | | || ||| ||| |||| ||||| || || | | | || | | |||| |||||| || || ||||||||||| |||||||| |||||||| |||||||||||||| || | || |||||||||||||| ||||||||||| || | ||||
gtgagtttgggtttgtaaagtaat----------attatgtatgacagtttcgatttt-gatgaccgctttttttcctgtttatacttttg--acagGATTACAAGGAGAAACCAGATTATGGTCGCTGTGTTGCTATTGTAGCATCTGCTTCGTTAAGAGAGATGATAAAACCTGGTGCTTTGGCAATCATTTCAC
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 12
gtgagtatgattctctata-gcatttttatggtt-tatcatgaatgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
|||| || | | | ||| || || ||| ||| ||| |||| ||||| || || | | | || | | |||| |||||| || || ||||||||||| |||||||| |||||||| |||||||||||||| || | || |||||||||||||| ||||||||||| || | ||||
----gtataatggtgagtttgggtttgtaaagtaatattatgtatgacagtttcgatttt-gatgaccgctttttttcctgtttatacttttg--acagGATTACAAGGAGAAACCAGATTATGGTCGCTGTGTTGCTATTGTAGCATCTGCTTCGTTAAGAGAGATGATAAAACCTGGTGCTTTGGCAATCATTTCAC
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 13
gtgagtatgattctctatagcatttttatggtttatcatgaat--gtaggttttaatttttaattgatgcat--gaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
| | | || | || | || ||| ||||||| || | ||| | | |||| | | | || ||||||||| || ||||| ||||| |||||||| ||||| |||||||| |||||| || || ||||||| ||||||||||| || ||||||||||| ||||||
---------------------gtaaatgtaattccgctggagtccgttcccttttatttttatttttttcatcgggtgtctttttgaactttatgtcacagGACTACAAGGAGAAGCCAGATTATGGTCGATGTGTCGCCATTGTCGCATCTTCAGCTTTGAGGGAAATGATAAAACCAGGAGCTTTGGCTATAATATCAC
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: PP1S28_200V6.1 (Physcomitrella patens), 3'ss of exon 13
----------------------------------gtgagtatgattc----tctatagcatttttatggtttatc--atgaatgta---ggttttaatttttaattgatgcatgaaattgttttaac-----atgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
||| | | || | | | | || | | |||| | | | | | | | | | ||| | ||||| || ||| | || || | ||| || |||||||||| || |||| ||| ||||| |||| || ||| |||||||||| | |||||||||||||| || |||||||| | | || |
gtgagtattcttttgagaatagatgcttcatggagtggtcacggtttggaatgcttgggaaattcaagatttaactaactactacatctgatctggagcttttgtggatgcttgcttttgataaaaatcttggtgcgaattgcagACATACCAAGAGAAACCCGATTATGCTCGATGTGTGTCCATCGTTGCAGCTGCATCTCTTCGTGAGATGATAAAACCAGGAGCTTTGGCGGTCATCTCTCMapped 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|37188469|gb|CF607818.1|CF607818EST: AGGTTGTCAATGAAGTAAGAAGACAGTTTATTGAGAGGCCAGGTATCATG GACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCT
genomic: AGGTTGTCAATGAAGTAAGAAGACAGTTTATTGAGAGGCCAGGTATCATGgtgagtatga ... tttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
ttttaac putative branch site (score: 2)
ttttaatttttaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtatgattctctatagcatttttatggtttatcatgaatgtaggttttaatttttaattgatgcatgaaattgttttaacatgtttgctacagGACTATAAAGAGAAACCAGACTATGGTCGTTGTGTTGCCATTGTAGCATCTGCATCTCTGAGGGAGATGATAAAACCCGGTGCTTTGGCTATTGTATCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG