Sequence
atgc intronic sequence ATGC exonic sequencegtaaacaagaaggacaagcttttggcttccatcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g02430.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 3'ss of exon 7
gtaaacaagaaggac--aagcttttggcttccatcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
||||| | || | || | | | | || || | | | | | | | ||| | | | ||| || ||| | |||||||| || || ||||| ||||| ||||| ||||||||||||||||| ||||| || ||||| || || || | || || || ||
gtaaatattgagatttgcaactgtgtgttgtaaccatgtgcagttttgggcacttattaacgaggctctg---cttggctgtctgcagTTATCTGGCACCAGAATACGCACAGAGTGGACAAATAACAGAGAAAGCTGATGTATACTCTTTTGGGGTTGTGTTAGTTGAACTTGTCACTGGGCGCAAG
upper sequence: Vv11s0016g02430.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G480607_T04 (Zea mays), 3'ss of exon 6
gtaaacaagaaggacaagcttttggc--ttccatcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgt--acagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
|| || | || | || ||||| | |||| | | | ||| | | ||| | ||| ||| || ||| |||| |||||||| || ||||| ||||| ||||| || |||||||||||||| || || || ||||| ||||| || | || || |||||
gtgggttttaatactattctatgaatattttcatcataggcaattaaacttttgagtttagctaacgac-agctttattactgtctgcagCTATCTGGCTCCTGAATATGCACAGAGTGGGCAAATAACAGAGAAGGCTGATGTATACTCTTTCGGGGTTGTGTTAGTGGAACTTGTCACTGGGCGGAAG
upper sequence: Vv11s0016g02430.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G03340.2 (Glycine max), 3'ss of exon 5
gtaaacaagaaggacaagcttttggcttccatcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
| | ||| | || | |||| | || | | | | || | | | | ||| || | ||||||| || | |||||||||||||||||||| ||||| || ||||||||||| || ||||| ||||| |||| || ||||||| | ||||||||||||
-------gtagtgccaatgtcttttttcccatt--ttcttttgattagttgtaaaaaatgatgatgtaagccttggttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAA
upper sequence: Vv11s0016g02430.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G36280.1 (Glycine max), 3'ss of exon 6
gtaaacaagaaggacaagcttttggcttccatcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
| | ||| | | | |||| | || | | | | || | | | || ||| || | | ||||| || | |||||||||||||||||||| ||||| || ||||||||||| || ||||| ||||| |||| || ||||||| | ||||||||||||
-------gtagtgccaatttcatttttcccatt--ttcttttgattagttgtaaaaaatgatgatgtaaaccttggttattcatagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAAMapped 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|30295608|gb|CB972402.1|CB972402EST: GAATAATTGGAACATTTGG GTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGA
genomic: GAATAATTGGAACATTTGGgtaaacaaga ... ttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGA
EST:
gi|30251712|gb|CB969445.1|CB969445EST: CAGCCAGATGGAGACATGGGAGTGGAAACACGAATAATTGGAACATTTGG GTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGA
genomic: CAGCCAGATGGAGACATGGGAGTGGAAACACGAATAATTGGAACATTTGGgtaaacaaga ... ttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
atcttac putative branch site (score: 3)
tcttactttt CT-rich tract
attaatcttactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacaagaaggacaagcttttggcttccatcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA