Sequence
atgc intronic sequence ATGC exonic sequencegtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 3'ss of exon 7
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
|| || | | | | | || | || | || || | | ||| | | || | | | |||||||||||||| |||||||| |||||||||||| | ||||| || |||||| | |||| ||||||||||| | |||||||||||||||||| |
-----------------------------------------------gtaacttattatctttgttctttatcaggtta--tccttagatgcaccattcttaatttatgtttgt--------agGTTTGTGCATGGTGATGTGAAACCAGAGAACTTTCTGCTTGGCCAGCCTGGATCACCTGACGAGAAGAAGCTTTATCTTATTGATCTTGGTTTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g57940.2 (Oryza sativa), 3'ss of exon 7
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattc-tgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
||| ||| | | | | ||| | | | ||| || | | || | || || | || |||||| |||||| ||| || | | || | | |||||||| ||||| ||||| || |||||||| ||||| |||||||| ||||| | | ||||||||||||||| || || |||||||||||||| |
----gtaaaatttaaagtcacttgtgcc------tgaaaattatatggagctgcatgga-atttctcttttgttttctatttcattggtgttaac-atttccagtgcatcttatcattgcc--agGTTTGTACATGGTGATGTCAAACCAGAGAATTTTTTGCTTGGTCATCCTGGGTCAGTTGATGAGAAGAAGCTTTTCCTGATTGATCTTGGTTTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g56580.2 (Oryza sativa), 3'ss of exon 7
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
| | | | || | | | |||| | | || ||| ||| | | || || | ||||| | | | ||||| || ||||||||||| || ||||| || ||| ||||||| ||||||||| | ||||||||||||| || ||| | ||||||||||| || |
---------------------------------------gtaagcaggcctttt----gaattttct----attagcctctggatttcactgttcat-gttttatttttggaacattttaccagGTTCGTTCATGGAGATGTTAAACCAGAAAATTTTCTACTTGGCCAACCTGGATCACCTGATGAGAAGAAACTTTTTTTGATTGATCTTGGCTTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G037923_T02 (Zea mays), 3'ss of exon 7
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagc---actttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
| | | || |||||| | || ||| | | || | | | | || | | | ||| | | | | || |||||||||||||| |||||||| |||||||| ||| | |||||||| |||||| | |||| || |||||||| | ||||| ||||||||||| |
----------------------------------gtgagctaaaattagctatcttgaacctaacgttcttagatgtatgtattactgttgatttac-actaagatcatctgtttgcc-------agGTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGAAGATAAGAAGCTTTACCTTATAGATCTTGGTTTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G082099_T01 (Zea mays), 3'ss of exon 1
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagc---actttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
| | | || |||||| | || ||| | | || | | | | || | | | | ||| | | | | || |||||||||||||| |||||||| |||||||| ||| | |||||||| |||||| | |||| || |||||||| | |||| ||||||||||| |
----------------------------------gtgagctaaaattagctatcttgaacctaacgttcttagatgtatgtattactattgatttac-actatgatcatctgtttgcc-------agGTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGAAGATAAGAAGCTTTACCTTACAGATCTTGGTTTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G458035_T01 (Zea mays), 3'ss of exon 5
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagc---actttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
| | | || |||||| | || ||| | | || | | | | || | | | | ||| | | | | || |||||||||||||| |||||||| |||||||| ||| | |||||||| |||||| | |||| | |||||||| | |||| ||||||||||| |
----------------------------------gtgagctaaaattagctatcttgaacctaacgttcttagatgtatgtattactattgatttac-actatgatcatctgtttgcc-------agGTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGAATATAAGAAGCTTTACCTTACAGATCTTGGTTTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G164265_T03 (Zea mays), 3'ss of exon 7
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
| || ||| | | || ||||| |||| | | || | | | ||||| ||| | | | | | | | |||||||||||||| |||||||| |||||||| ||| | |||||||| |||||| | |||| || ||||| || | ||||| ||||| ||||| |
-----------------------------gtcagccaaaattagctatgttcatctgagcg---tccttaga-tgtatgtatga--ctgttgatt--taccctaaggtcctctgtttggc--agGTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 7
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctct--cttgagcactttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
||| || ||| | ||| | | | | || | | | | || || | ||| | | || | ||||| | | | | || | |||||||||||||||||||||| || || |||||||| ||||||||||||||| | ||||| || |||||| ||| |||||||||||||||| |||
-------------gtaaacccttgtgatagttttttcaatcctgtcaacctttaacattaccatttattttggcatggttgtgactgactaatttttattaatgaaactcgtatcattgaatta-gGTTTGTGCATGGAGATGTGAAACCTGAAAACTTTTTGCTTGGTCAACCTGGATCAGCTGAAGATAAGAAGTTATATCTTATTGATCTTGGTCTGG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 3'ss of exon 7
----gtgagtactattaataattcca--tgtttcactttctcagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattctgttaattattgt----catcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
||| | | | || | ||| | || | | ||| | | | | || |||| | ||| | | | | | | | | | | | | || || | |||| ||||||||||||||||||||||||| ||||| |||||||| |||||||| |||||||| || || |||||||| |||| ||||| ||||||||| | |
gttagtgcgaatttttgttgtcgccaataaatccatctatttcgaacaaaaatatttacattt-gcac----caaaaaattacgccattgctgagctgactgtcatgcattgttcattccctacatcaaacaagGTTTGTGCATGGAGATGTGAAACCAGAAAACTTTTTGCTTGGTCAGCCTGGAACAGCAGACGAGAAGAAACTATACCTTATCGATCTTGGTCTAG
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 7
gtgagt-actattaataattccatgtttcactttct--cagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcc----tcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
|| ||| ||||| || || | | | || | || |||| | | || | | || | | | ||| ||| | | | ||| | | | | || | || |||| | |||||||| || |||||||||||||| || ||||||||||| |||||||| ||||| || |||||||| || || | ||||| ||||||||| |||
gttagttactat--attttttcgtaacttctttgcaaatagtttcattcatttcgctttaactaattacaatgtattatctt--tcactgtactgattgtcatgctatgttccatccccatatcaaactagGTTTGTCCACGGAGATGTGAAGCCGGAAAACTTTTTACTCGGTCAACCAGGAACAGCAGATGAGAAAAAACTCTACCTTATCGATCTTGGTCTGGMapped 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|71861339|gb|DT010394.1|DT010394EST: TGCATTGCAGTAGAGGCAATATCAATTCTCGAGAAGCTTCACATGAAGGG GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGG
genomic: TGCATTGCAGTAGAGGCAATATCAATTCTCGAGAAGCTTCACATGAAGGGgtgagtacta ... ctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
tgttaat putative branch site (score: 3)
ttattgtcatcttttt CT-rich tract
ttaattattgtcatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtactattaataattccatgtttcactttctcagaatcatcctgtctctcttgagcactttcctcaaagtggcttcttcattctgttaattattgtcatcttttttcttcctcaaccaagGTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC