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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcctttttttgttaatcttttttgtctttttgtttctttggtttctagtttccttgtatactaattattgccttttatgaatgtcttattcttctctttataattctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCCACCTCTACATATCTTTTGTACTTTGGCCTGACACCTT

Basic information

species Vitis vinifera
transcript Vv04s0023g01950.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g01950.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G06180.1 (Glycine max), 3'ss of exon 2
gtaatcctttttttgttaatcttttttgtctttttgtttctttggtttctagtttccttgtatactaattattgccttttatgaatgtcttattc-ttctctttataattctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCCACCTCTACATATCTTTTGTACTTTGGCCTGACACCTT
             |  ||| || ||   ||||||| |    |    ||||  ||| |    ||  |  || |  | ||| |||  | |  | ||  || ||| ||||  | | |||||||||| || |||||||||||||||||||||||||| || ||| | | ||  || ||||||||||| ||||||||||| |||   || |
------------gtaataaactcttaactctttttctggtctaatgttctccttttcc---attgtggttttaacttttaatgtttcttgtgtttgttttctgtatatgtatgaatagCCGGGTCCGCGTGATTCTCCAATACAGTGCTTTATCAGGAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCAT

upper sequence: Vv04s0023g01950.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G25210.1 (Glycine max), 3'ss of exon 2
gtaatcctttttttgttaatcttttttgtctttttgtttctttggtttctagtttccttgtatactaattattgccttttatgaatgtcttattc-ttctctttataattctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCCACCTCTACATATCTTTTGTACTTTGGCCTGACACCTT
|||||   || ||        |||| || | |  ||||    |  |||    || | ||||       || |  | ||| |||  | |  | ||  || |||||||   | | |||||||||| || |||||||||||||||||||||||||| || ||| | | ||  || ||||||||||| ||||||||||| |||   || |
gtaataaattcttaacc--ctttttctggcctaatgttctcctttttt----ttcctttgtg-----gttttaacttttaatgtttcttgtgtttgttttctttatgtgtatgaatagCCGGGTCCGCGTGATTCTCCAATACAGTGCTTTATCAGGAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCAT

upper sequence: Vv04s0023g01950.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G37940.1 (Glycine max), 3'ss of exon 2
gtaatcctttttttgttaatcttttttgtctttttgtttctttggtttctagtttccttgtatactaattattgccttttatgaatgtcttattcttctctttataattctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCCACCTCTACATATCTTTTGTACTTTGGCCTGACACCTT
                  ||     | |||   | |   |     || | || ||  || |    |   ||| |   ||| ||  | |  | || |  |  |  |   | | ||||||| || || |||||||||||||||||||||||||| || ||| | ||||  || || |||||||| |||||| ||||||||  ||| |
-----------------gatacaaatggtccaatgggagcaagaattcccagcttttttcttgtttccctatggggatttctgtttcttatgttatgtttctcttgtgtatgaatagCCTGGTCCTCGTGATTCTCCAATACAGTGCTTTATCAGGAGGAACAGAGAAACTTCAACATATCTATTGTACATTGGCCTGGTACCAT

upper sequence: Vv04s0023g01950.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G07410.1 (Glycine max), 3'ss of exon 1
gtaatcctttttttgttaatcttttttgtctttttgtttctttggtttctagtttccttgtatactaattattgccttttatgaatgtcttattcttctctttataattctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCCACCTCTACATATCTTTTGTACTTTGGCCTGACACCTT
|| ||   || ||     | || || |||    |  | | |||  ||| |  || ||||   ||    ||  ||  | |||||      ||||  |||||||| |     | ||||||| || || |||||||||||||||||||| ||||| || ||| | ||||  || || |||||||| |||||| ||||||||  ||| |
gtgataaattcttc----acctcttgtgttgcctaatcttttttcttttt--ttccctt---tagggttttctgtttcttatg------ttatgtttctcttt-tgtgcatgaatagCCTGGTCCTCGTGATTCTCCAATACAGTGTTTTATCAGGAGGAACAGAGAAACTTCAACATATCTGTTGTACATTGGCCTGGTACCAT

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|110384759|gb|EC949218.1|EC949218
EST:     AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAG                         CCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCC
genomic: AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAGgtaatccttt ... ttctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCC
EST: gi|110369611|gb|EC933775.1|EC933775
EST:     AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAG                         CCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCC
genomic: AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAGgtaatccttt ... ttctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCC
EST: gi|110718379|gb|EE095148.1|EE095148
EST:     AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAG                         CCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCC
genomic: AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAGgtaatccttt ... ttctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCC
EST: gi|33403597|gb|CF209224.1|CF209224
EST:     AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAG                         CCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGGGCC
genomic: AAACTCCAGAGGAATGTGGAAGGCTCACATTCCCCATTTCATTGAAGCAGgtaatccttt ... ttctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactaattattgccttttatgaatgtcttattcttctctttataattctaaatagCCGGGGCCACGTGATTCTCCAATACAGTGCTTTATTAGAAGGGATAGAGCCACCTCTACATATCTTTTGTACTTTGGCCTGACACCTT
 tactaat  putative branch site (score: 1)
                           ttattcttctctttat  TA-rich tract