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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctttccgtatggatcatgctactatgcttaatatttgatataattatttagaaatagtttcatgtggtttggttcattatctcacattatctttcttctattttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGATGACCCTATCATCTGGCATTTTCCATATTTTCGCT

Basic information

species Vitis vinifera
transcript Vv06s0009g03520.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G08620.3 (Glycine max), 3'ss of exon 4
gtatgttctttccgtatggatcatgctactatgcttaatatttgatataattatttagaaatagtttcatgtggtttggttcattatctcacattatctttcttctattttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGATGACCCTATCATCTGGCATTTTCCATATTTTCGCT
             |||||  || | |  | ||||  ||| |      |  | |||||||     ||  ||    |    ||  || |  || |||  || | || | |   ||  |||||||||||  ||||    |||| ||||| | |||||||||||||||| ||||||  |||  ||||||||||||||||||| |   
-------------gtatgt-tctttcctccatgcccaatgtgc----ttgtcatttaga-----ttcaatagaat---attttttttaacatatttgctattttatgt---ctacagGGCAACATTATTACCATTTATTAAACGTTTTCTGCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC---

upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 4
gtatgttctttccgtatggatcatgctactatgcttaatatttgatataattatttagaaatagtttcatgtggtttggttcattatctcacattatctttcttctattttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGATGACCCTATCATCTGGCATTTTCCATATTTTCGCT
             |||||  || | |  | ||||  ||| |      |  | |||||||     ||  ||    |    ||  || |  || |||  || | || | |   ||  |||||||||||  ||||    |||| ||||| | |||||||||||||||| ||||||  |||  ||||||||||||||||||| || |
-------------gtatgt-tctttcctccatgcccaatgtgc----ttgtcatttaga-----ttcaatagaat---attttttttaacatatttgctattttatgt---ctacagGGCAACATTATTACCATTTATTAAACGTTTTCTGCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCGTT

upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G08510.1 (Glycine max), 3'ss of exon 4
gtatgttctttccgtatggatcatgctactatgcttaatatttgatataattatttagaaatagtttcatgtggtttggttcattatctcacattatctttcttctattttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGATGACCCTATCATCTGGCATTTTCCATATTTTCGCT
                      ||| |  | | || |   |   || |  ||||          ||||  ||   | |  || || ||  ||||  |   | || ||| | ||  |||||||||||  ||||    |||| ||||| | ||||||||||||||||||| ||||  ||  |||||| |||||||||||| || |
--------------------gtatgttctttttctca-cgtccaatgtgcttatc--------atttcgagtcaatagaatctttttca-acatatttgctattttatgt-ctacagGGCAACATTATTACCATTTATTAAACGTTTTCTGCCAAAGCATTGGAATGAGGACCTCATAGTCTGGCGTTTTCCATATTTCCGTT

Mapped 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|71877015|gb|DT026070.1|DT026070
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|27579299|gb|CB001994.1|CB001994
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|351030693|gb|FQ438531.1|FQ438531
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|22010806|gb|BQ795840.1|BQ795840
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|77579348|gb|DV218502.1|DV218502
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|161717568|gb|FC066896.1|FC066896
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|349812621|gb|FQ409780.1|FQ409780
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|110730433|gb|EE107509.1|EE107509
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|110708740|gb|EE086629.1|EE086629
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
EST: gi|71874644|gb|DT023699.1|DT023699
EST:     AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTC                         GGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA
genomic: AATGCTGTACTGACATGCTACTTCTTTGTGCTTGGGATCATCGCTCTTTCgtatgttctt ... ttttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttcatgtggtttggttcattatctcacattatctttcttctattttctgtagGGCAACATTGCTACCTGCAATTAGACGTTATTTGCCAAAGCATTGGAATGATGACCCTATCATCTGGCATTTTCCATATTTTCGCT
                       atctcac  putative branch site (score: 3)
                        tctcacattatctttc  CT-rich tract
                              attatcttt  TA-rich tract