Sequence
atgc intronic sequence ATGC exonic sequence...aaatgtttaattaaaacattaagcttgtgaaccatgctttttacaaattcgcccataaagtttgaatatttacaacataggtgctctgaatgtgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g46940.1 (Oryza sativa), 3'ss of exon 4
-----aaatgtttaattaaaacat--taagcttgtgaaccatgctttttacaaattcgcccataaagtttgaatatttacaacataggtgctctgaatgtgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG---
|||||| | || | | || | | || || | ||| | ||| | | |||| | | | | | || | |||| | ||||| ||||||||||||||||||| |||||| | |||||| |||| ||||| ||| || ||||| | ||| | ||||||| |||||||
attaaaaatgtc-acctagttcctcctaggttggttaaggttcttttgttgtgatttgt--aaaaagaaacattgctcaaattttatcggttctggtctt----cagGTCAACAGTGAGCACCCACTGGGTAAGGCAGTCGTGGAGCATGCCAAGAAGTTCCATTCGGA---AGAGAGCCATGTCTGGACTGAAGCAAGGGATTTCATTT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G42790.1 (Glycine max), 3'ss of exon 4
aaatgtttaattaaaacattaagcttgtgaac----catgctttttacaaattcgcccataaagtttgaatatttacaacataggtgctctgaatg--tgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG---
| | ||| || || | |||| || || | ||| ||||||| |||| | || |||| | ||| | || | | |||||||| |||||||| |||||||| |||||| |||| ||||||||||| | ||| ||||| ||||||||| || |||||||||||||| ||||| |
----ttatgattgcaa--tttaatttgttaattgttcaagtgattttaaaattcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGA---TGAAGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G32190.1 (Glycine max), 3'ss of exon 5
aaatgtttaattaaaacattaagcttgtgaaccatgc-tttttacaaattcgcccataaagtttgaatatttacaacataggtgctctgaatg--tgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG---
| |||| | ||| || | ||| ||| | ||| || | | | | | || | || | | | || | | |||||||| |||||||| ||||||||||||||||| || |||||||| || ||| | ||||| ||||| ||| |||| ||||||||| ||| |||||| |
-----------gtaggcattctattattgagtttcgcatgcttataaagttattcatgaa---taattgtgaataaatttcgttgtataattggctatgtcagGTGAATAGTGAGCATCCACTGGCTAAGGCCATAGTTGAGTATGCCAAAAAACTGAGAGATGATGA---GAACCCCATTTGGCCAGAGGCACGGGATTTTGTGT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G01680.1 (Glycine max), 3'ss of exon 6
aaatgtttaattaaaacattaagcttgtgaaccatgc-tttttacaaattcgcccataaagtttgaatatttacaacataggtgctctgaatg--tgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG---
| |||| | ||| | | ||| || | ||| || | | | | | ||| | || | | | || | | |||||||| ||||| || ||||||||||||||||| || |||||||| || ||| | ||||| ||||| ||| |||| ||||||||| ||| |||||| |
-----------gtaggcattctattattgagtttcacatgcttatcaagttattcatgaa---taattgtgaataactttcgttgtataattggctatgtcagGTGAATAGTGAACATCCACTGGCTAAGGCCATAGTTGAGTATGCCAAAAAACTGAGAGATGATGA---GAACCCCATTTGGCCAGAGGCACGGGATTTTGTGT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G63440.1 (Arabidopsis thaliana), 3'ss of exon 4
aaatgtttaattaaaacattaagcttgtgaaccatgctttttacaaattc--gcccataaagtttgaatatttacaacataggtgctctgaatgtgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG
| ||||| || | | ||| | | | | |||| | | | |||| | ||| || ||||| ||||||||||| || | || ||||||||||| ||||| || |||||||||||||| || |||||||| || | ||||||||||| ||||| |
-------------------------------gtaaacttttggaaactcctggcctacatcaaaagtaatattactatgttgatgctattt-tgtttatcagGTAAACAGTGAGCATCCGTTAGCAAAGGCCATTGTCGAGTACGCGAAGAAATTCAGAGACGACGAAGAGAACCCTGCCTGGCCAGAAGCCTGTGATTTTGMapped 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|110728350|gb|EE103842.1|EE103842EST: TGAAAAATATGGTACTCCAAGAATTCTATGAACTTGTTGCGGCCACTGAG GTGAACAGTGAGCACCCACTGGCAAAGGCCATTGTGGAGTATGCTAAGAAA
genomic: GGAAAAATATGGTACTCCAAGAATTCTATGAACTTGTTGCGGCCACTGAGgtaggcattt ... tgtgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattcgcccataaagtttgaatatttacaacataggtgctctgaatgtgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG
ataaagtttgaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatgtttaattaaaacattaagcttgtgaaccatgctttttacaaattcgcccataaagtttgaatatttacaacataggtgctctgaatgtgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - aattaaa
- - - - - - - - - - - gcttgtg
- - - - - - - - - - - - - - - -ccatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgaa