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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatttctcacaatccattcacttcaaaattgtttgtgtatgttccactgttcctgacatacatcaatatgatattgggaggcaagacttctgattttttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG

Basic information

species Vitis vinifera
transcript Vv01s0011g04370.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 6
gtatgatttctcacaatccattcacttcaaaattgt-ttgtgtatgttccactgttcctgacatacatcaatatgatattgg-gaggc--aagacttctgattt--tttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG---
|||||| | |   ||  | | |  ||||    || | || | | || |  ||  ||        |  ||   |   | |||| || ||   |   | |||||||   |   | | | ||||||| | |||||||||||| |||||| | || |||||  ||||||||||||| ||||||||||||||  | || || || ||  |||||||  | |||||||   
gtatgactccattca-ccaacttgcttctcctttttgttctatttgatttacc-ttaaaactccagttctgcaaagtcttggagatgcttcaagttactgatttgaatataggtttctctaggagATCCTTTTTGATGAGTTTGTTATTGCCCATATCCTTGGATGGTGGGGGAAGGCTATAATGATAAGAAACCAACCACTTTTATGGGTATTATCAATTGGCT

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 6
gtatgatttctca--caatccattcactt-caaaattgtttgtgtatgttccac---tgttcctgacatacatcaatatgatattgggaggca----agacttctgattt--tttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG
|||||||  ||      | | | | |||| |    |||||    |  ||| | |   |  | ||||| ||        |||   |   |  |     |   | |||||||   |   ||| ||||||||| | | ||||||||||||||||| | ||||||||  |||||||||||||||||||||||||||| || || || || ||  | |||||  |||||||||
gtatgatgacttcattcaccaacttactttcctttttgttcaatttcgtttctcatatacttctgac-taagcagtcttgactattcaatacgcttcaagttactgatttgaatatagttttttctagGAGATCATTTTTGATGAATTTGTTATAGCTCATATCCTTGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTCTTGTCAATTG

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 6
-------------gtatgatttctcacaatccattcacttcaaaattgtttgtgtatgttccactgttcctgacatacatcaatatgatattgggaggcaagacttctgattt--tttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG
              |       |  ||  ||| ||   |||||  | |||| |  || | |   ||  |    ||  | | | |||   |||  |   ||||  | |||||||   |   ||| ||||||||| |   |||||||||| |||||| | ||||||||  | |||||||||||||||||||||||||| || || || || ||  | |||||| | |||||||
gtatgatgacttcattcaccgacctactttcctttttgttcaatttcgtttct-catatacttttga-ctaagcactcttgactatt-cattatgcttcaag-ttactgatttgaatatagttttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCCTCGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTGTTATCAATTG

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 9
gtatgatttct--cacaatccattcacttcaaaattgtttgtgtatgttccactgttcctgacatacatcaatatgatattgggaggcaagacttctgattttttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG
|||||||||||  ||||| | ||    ||    ||| | |    |  ||    ||||| |  | |  |||| |||     |   |     | ||  |   || | ||     ||  |||| || |||||||||||||||||| | |||||| |  ||||||||||||| ||||| ||| ||||||| ||||||||||| || |||||| | |||||||
gtatgatttctttcacaacctatgtttttgcttattctctcctaaaattattttgttcttcgctt-tatca-tatttggatataacatggggctgatatattatgcttcatctttcagGAGACACTTTTTGATGAATTTGTTTTAGCTCATGTTATTGGATGGTGGGGGAAGGCAATATTGATTCGTAATCAGCCCCTTCTTTGGGTGTTATCAATTG

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 7
gtatgatttct--cacaatccattcacttcaaaattgtttgtgtatgttccactgttcctgacatacatca-atatgatattgggaggcaagacttctgattttttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG
|||||||||||  ||||| |  |    ||    ||| | |    |  |     ||||| |  | |  |||| || ||  | |   | |   | ||| |   || |  |    |||  |||| || |||||||||||||||||| | |||||| |  ||||||||||||| ||||| ||| ||||||| ||||| ||||| || |||||| | || ||||
gtatgatttctttcacaacctttgtttttgcctattctctcctaaaatagttttgttctttgctt-tatcatatttggaaataacatg--gggcttatatattatgtttcatttttcagGAGACACTTTTTGATGAATTTGTTCTAGCTCATGTTATTGGATGGTGGGGGAAGGCAATATTGATTCGTAATCAACCCCTTCTTTGGGTGTTATCCATTG

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|349828936|gb|FQ419269.1|FQ419269
EST:     GCCGCATTTATGTGCCTGAAAATCCAACCAGCAGGTTTAAGAATGTTTAT                         GAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATNTGGATGGTGGGGT
genomic: GCCGCATTTATGTGCCTGAAAATCCAACCAGCAGGTTTAAGAATGTTTATgtatgatttc ... ttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacatcaatatgatattgggaggcaagacttctgattttttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG
                              ttctgat  putative branch site (score: 3)
                                    ttttttctgttgtttc  CT-rich tract
       aatatgatatt  TA-rich tract