Sequence
atgc intronic sequence ATGC exonic sequence...aaattcttggtgaatttccggttaatcagcgcttaaaagtttaatattgggatgaagtttgaaattgatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 4
--aaattcttggtgaatttccggttaat--cagcgcttaaaagtttaatattgggatgaagtttgaaattgatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
| || | | | || ||| | || |||| | || | | || | ||| | | | | |||||| | || | ||||||| ||||| |||||||||||||||| ||||| |||||||||||||||||||| || || |||| ||| |||||||| | |||||||| ||||| |
tttagttgacactatgcataagaaggatgacagtacctagcagttgca-gttatatttcatttaaagattaacattttttctgtgttttgg---ggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCCGGAGATTCACCCAGATGCCGTGATCTTGTTCTCGGTGATGGAGCTTTGCTTCCTCTACTGGCACAATTGAATG
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 5
--aaattcttggtgaatttccggttaat--cagcgcttaaaagtttaatattgggatgaagtttgaaattgatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
| || | || | || ||| | || |||| | || | | | || | || | | | | |||||| | | || | ||||||| ||||| ||||||||||||| || ||||| || ||||||||||||||||| || || ||||| ||| |||||||| | ||||||| ||||| |
tttagttgacactatgcatcagaaggatgacagtacctagcagttgca-gttatgtttcatttaaagtttaacattttttctgtgttttgt---ggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGATCTTGTTCTCGGTCATGGAGCTTTGCTTCCTCTATTGGCACAATTGAATG
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 4
aaattcttggtgaatttccggttaatcagcgcttaaaagtttaatattgggatgaagtttgaaatt-gatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
| | | | | | | | ||| || | || | | | || | | | | | || | | || | | |||| |||||||| |||||||||| || || ||||| || ||||| ||||||||||| || | ||||||||| ||||||||||| ||||||| || || |
cagccgacaacagaagac-aacaataccttgttgtactgttccatgctatcatttattaaaagctttaacattttacccttggtattttgggtactcacagGCAGTGTGGGCATTAGGAAATGTCGCTGGGGATTCGCCTAGATGTCGTGATCTTGTTCTAAGTCATGGGGCTTTGCTTCCTTTGTTGGCACAATTAAATG
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G38320.1 (Glycine max), 3'ss of exon 4
-aaattcttggtgaatttccggttaatcagcgcttaaaagtttaatattgggatgaagtttgaaattgatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
|| | | | | | | | | ||| || | || | | || || | | | | | || | | ||| | | |||| |||||||| |||| ||||| || || ||||| || ||||| ||||||||||| || | ||||||||| ||||||||||| ||||||| || || |
tgcatctgacatcagaaggcaacaataccttggtgcactgttccatgctatcatttgttattaacttaacattttacccttgatat-tttggtactcacagGCAGTGTGGGCATTAGGCAATGTCGCGGGGGATTCACCTAGATGTCGTGATCTTGTTCTCAGTCATGGGGCTTTGCTTCCTTTGTTGGCACAATTAAATGMapped 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|110359173|gb|EC920237.1|EC920237EST: CGGTGTTTGTGAAACTTCTTGGTTCTCCAAGTGATGATGTTCGTGAACAG GCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGAT
genomic: CGGTGTTTGTGAAACTTCTTGGTTCTCCAAGTGATGATGTTCGTGAACAGgtacatattt ... gctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgggatgaagtttgaaattgatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
aattgat putative branch site (score: 4)
ttttgctc putative PPT
tttgaaattgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaattcttggtgaatttccggttaatcagcgcttaaaagtttaatattgggatgaagtttgaaattgatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
- -ttcttgg
- - - - - - - - - - - - - - - -cttaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catacct