Sequence
atgc intronic sequence ATGC exonic sequence...attttctctcttcctctctctctcaccccccaaccccctcccccaacatgttttgcaaggtggcaaatgttgatgagcttacagttctttacatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGATGCTGTGTTTTGTTGTTTGCCACATGGAACCACACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g42110.1 (Oryza sativa), 3'ss of exon 4
-----------------------attttctctcttcctctctctctcaccccccaaccccctcccccaacatgttttgcaaggtggcaaatgttg-atgagcttacagttctttacatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGATGCTGTGTTTTGTTGTTTGCCACATGGAACCACACAG
| | | | | | | | | | ||| | |||||| ||| || ||||| || | || | ||||| | ||||| | ||| || | ||||| | || |||||| | ||||| ||||||||||| || |||||||| ||||||||||| || || |||
gtaagatctttttctcaatccttggtgcataggtaaatgttttggtggtacatacaattattgtgccataaatttttgct-ggtcaaaactgttggataatgttgatgctcttttttcatgcagGACCTGCCAAATTTAGTTGCAGTAAAAGATGCAGATTTTTCAAATGTGGATGCAGTTTTTTGTTGCTTGCCACATGGTACAACCCAG
upper sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 4
---attttctctcttcctctctctctcaccccccaaccccctccc--ccaacatgttttgcaaggtggcaaatgttgatgagcttacagttctttacatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGATGCTGTGTTTTGTTGTTTGCCACATGGAACCACACAG
| | || | | | | | || | || || | ||| | | || | | | ||||| || | ||||| | ||| || | ||||| || || |||||| | ||||| ||||| ||||| || |||||||| |||||||||||||| || |||
tttggtagtacatttatttttattagaatttctgggccatattgtagtcattttgctgatcaaaattgtaagactctgctggtta-----tcttttgatatgcagGACCTCCCAAATTTAGTTGCAATAAAAGATGCAGATTTTTCAAATGTTGATGCGGTTTTTTGTTGCTTGCCACATGGAACAACCCAG
upper sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 4
----attttctctcttcctctctctctcaccccccaaccccctcccccaacatgttttgcaaggtggcaaatgttgatgagcttacagttctttacatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGATGCTGTGTTTTGTTGTTTGCCACATGGAACCACACAG
||||||| || | || | | | ||| ||| | || |||| | || | | | | | ||| ||||| || |||||| || |||| || ||||||||||| |||||| ||||||||||||| || ||||||||||| |||||||| || |||
catcattttcttgagcaatcctcatggcatgattatgaaatatgcacgtcgatgcattgttatgt---aaat-tacataatttgagcttaacccatgtttgcagGACTTGCCAGATTTGATTGCAATAAAGGATGCAAACTTTTCTGATGTGGATGCTGTATTCTGTTGTTTGCCTCATGGAACTACTCAG
upper sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G01220.1 (Glycine max), 3'ss of exon 3
attttctctcttcctctctctctcaccccccaaccccctcccccaacatgttt-tgcaaggtggcaaatgttgatgagcttacagttc-tttacatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGATGCTGTGTTTTGTTGTTTGCCACATGGAACCACACAG
| | |||| | || |||| | | |||||| |||| || | || | || | || | ||| ||||| || |||||| || || | || ||||||||||| |||||| ||||||||||||| || ||||||||||| |||||||| || |||
catcattttcttgagcaatc-ctcatggcgtgattatgaattatg-catgttgatgcactgttatgtaaattacataatttgaacttaacccatgtttgcagGACTTGCCAGATTTGATTTCAATAAAGGATGCAAACTTTTCTGATGTGGATGCTGTATTCTGTTGTTTGCCTCATGGAACTACTCAGMapped 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|110729272|gb|EE105384.1|EE105384EST: GAAAAGCTGGTCAATCAATTGGATCAGTATTTCCACATTTGATCACACAA GATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGAT
genomic: GAAAAGCTGGTCAATCAATTGGATCAGTATTTCCACATTTGATCACACAAgtatgactct ... acatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatgttttgcaaggtggcaaatgttgatgagcttacagttctttacatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGATGCTGTGTTTTGTTGTTTGCCACATGGAACCACACAG
agcttac putative branch site (score: 3)
ttctttac putative PPT
tttacattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttctctcttcctctctctctcaccccccaaccccctcccccaacatgttttgcaaggtggcaaatgttgatgagcttacagttctttacatttacagGATTTACCAGATATGGTTGCTATCAAGGATGCAAAATTTTCTAATGTGGATGCTGTGTTTTGTTGTTTGCCACATGGAACCACACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - -ctcttcc
- - - - - - -ctctctc
- - - - - - - - - - - - -cccccca
- - - - - - - - - - - - - - - - - -ccctccc
- - - - - - - - - - - - - - - - - - - - - -caacatg
- - - - - - - - - - - - - - - - - - - - - - - - - ttttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaaatg