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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctctcaatttcacacattccttccctcaatagcttcatattgtcattattctgatttttcttttctccttttctacagGTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCTGATGGTCTAATCCTTGGAACGGGTACCTCTGAGGCTCTTGTTAAAATTT

Basic information

species Vitis vinifera
transcript Vv05s0049g01840.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G324540_T01 (Zea mays), 3'ss of exon 12
gtttctctcaatttcacacattccttccctcaatagcttcatattgtcattattctgatttttcttttctccttttctacagGTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCTGATGGTCTAATCCTTGGAACGGGTACCTCTGAGGCTCTTGTTAAAATTT
  ||  |||  |  ||||||| |   |      |  || ||| |    ||   | | ||| | | |   |  |||| | ||||| |  ||||||||||||   ||||| |||||||||||  | || ||||| |||||||| ||||||||||| || ||  |||| ||| ||||||||||||
-gttacctccctcacacacatgcacacatatttttactacatttgagtatgcatatcattgtgcatgattatttttat-cagGTTGGCGATGCTTCAGGACAAGAGGGATATACATCTGCGTCTTTCCATCCAGATGGTCTTATCCTTGGAACAGGAACTACTGATGCTGTTGTTAAAATTT

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AC205703.4_FGT004 (Zea mays), 3'ss of exon 2
-------------------gtttctctcaatttcacacattccttccctcaatagcttcatattgtcattattctgatttttcttttctccttttctacagGTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCTGATGGTCTAATCCTTGGAACGGGTACCTCTGAGGCTCTTGTTAAAATTT
                   | ||  |||  |  ||||||| |   |      |  || ||| |    ||   | | ||| | | |   |  |||| | ||||| |  || |||||||||   ||||| |||||||||||  | || ||||| |||||||| ||||||||||| || ||  |||| ||| ||||||||||||
caggatcttgcctgacacaggttacctccctcacacacatgcacacatatttttactacatttgagtatgcatatcattgtgcatgattatttttat-cagGTTGGCGAGGCTTCAGGACAAGAGGGATATACATCTGCGTCTTTCCATCCAGATGGTCTTATCCTTGGAACAGGAACTACTGATGCTGTTGTTAAAATTT

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G26870.1 (Glycine max), 3'ss of exon 12
--------gtttctctcaatt---tcacacatt----ccttccctcaatagcttcatat---tgtcattattctgatttttcttttctccttttctacagGTGGCAGATGCTTCAGGATCT---GAGGGCTATACATCTGCAGCCTTTCATCCTGATGGTCTAATCCTTGGAACGGGTACCTCTGAGGCTCTTGTTAAAATTT
         | | ||| |  |   | | | |||    |||| |||  |    ||| ||     ||  | | || ||   ||  |    |   || |  ||||    ||  ||||||| |||   || || || || |||||||| ||||||||||||||||| || |||||||| || ||| | ||  ||||||| || |   
tctttaaaatctatcttacgtaagttatagatttaaacctttccttcagtctttcctacagaagttctgaatcagacaattaatgatacgagttgtgtagGTTTATGACACTTCAGGTTCTTCTGAAGGGTACACTTCTGCAGCTTTTCATCCTGATGGTCTTATTCTTGGAACCGGCACCACAGAATCTCTTGTCAAGA---

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|110422448|gb|EC988773.1|EC988773
EST:     ACATGGTGCTTTTATGATCTTTCATCTGGTTTATGTCTGACACAG                         GTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCT
genomic: ACATGGTGCTTTTATGATCTTTCATCTGGTTTATGTCTGACACAGgtttctctca ... ttttctacagGTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCT
EST: gi|37184349|gb|CF603703.1|CF603703
EST:     ATAACACATGGTGCTTTTATGATCTTTCATCTGGTTTATGTCTGACACAG                         GTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCT
genomic: ATAATACATGGTGCTTTTATGATCTTTCATCTGGTTTATGTCTGACACAGgtttctctca ... ttttctacagGTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctcaatagcttcatattgtcattattctgatttttcttttctccttttctacagGTGGCAGATGCTTCAGGATCTGAGGGCTATACATCTGCAGCCTTTCATCCTGATGGTCTAATCCTTGGAACGGGTACCTCTGAGGCTCTTGTTAAAATTT
                         ttctgat  putative branch site (score: 3)
                ttgtcattattctgat  CT-rich tract
                     attattctgattttt  TA-rich tract