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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT

Basic information

species Glycine max
transcript GLYMA07G08320.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os10g37740.1 (Oryza sativa), 3'ss of exon 7
gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
||| | | |||  ||| || |   ||     ||||   | | |||  | | |  |     |   |||     | | ||||| ||||||||||||||||| |||||||| ||||||||||| || |||||||| ||||| ||||| |||||||| ||||| || || || |  || |||||||| |
gtatgcttcttgtcctgct-agcatg-----ttgattctgtgttgcacatgtattt----gacaatgcagacactccattt-cagGTTCCTGGTGAACCTAACATATCATACATTTGCTCGCGGTATTATAGGGCTCCTGAACTAATATTTGGAGCTACAGAGTATACCACAGCAATTGATATCT

upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G131853_T01 (Zea mays), 3'ss of exon 7
gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
|||   | || |  ||| |   ||    ||  |||| || ||        |||    |     ||   ||  ||  |  |||||||| |||||||| || |||||||||||||||||||| || |||||||| ||||| ||||| |||||||| ||||| || || || | ||| || ||||| |
gtatacttctct--cttttagtttgtttctgctgaatatcttc-------atggatttaa---taaagtaaaatatccatttcagGTCCCTGGTGAGCCTAACATATCGTACATTTGCTCGCGGTATTATAGGGCTCCTGAACTAATATTTGGAGCTACGGAGTATACCACTGCGATCGATATCT

upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G109624_T01 (Zea mays), 3'ss of exon 7
gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
|||   | || |  ||| |   ||    || ||||| || ||        |||    |     ||   ||  ||  |  |||||||| |||||||| || |||||||||||||||||||| || |||||||| ||||| ||||| |||||||| ||||| || || || | ||| || ||||| |
gtacacttctct--cttttagtttgttcctgttgaatatcttc-------atggatttaa---taaagtaaaatatccatttcagGTCCCTGGTGAGCCTAACATATCGTACATTTGCTCGCGGTATTATAGGGCTCCTGAACTAATATTTGGAGCTACGGAGTATACCACTGCAATCGATATCT

upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G00720.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
||| |||| |||   || |||   |||  | ||| ||||   || ||| | ||        |   | | |   ||    | |||||| || |||||||| |||||||| || || ||||| || || || || || |||||||||||||||||||| || || || || | ||| ||||| ||||
gtatgttcattt-ttttttga---tgagttcttggagatgagtt-atcatttgaataatgatggctaacaccctttgcgtctcagGTACCCGGTGAACCTAACATATCCTATATATGCTCCCGGTACTACAGGGCCCCAGAACTTATATTTGGGGCGACAGAGTATACCAATGCCATTGACATGT

upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0048g02010.t01 (Vitis vinifera), 3'ss of exon 7
gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
    ||   ||||   |||   || ||| |||| || |    ||     ||      |  |    | || ||  ||   |   |||| || |||||||| |||||||| || ||||||||  | |||||||| ||||||||||| || ||||||||||| ||||| |||| ||| ||||||||||
----gtatgtttattatcttccttggaatttttcaacactaatttgctatagcaggttttgaacttcatttgcctga--tggtagGTGCCAGGTGAACCAAACATATCATATATTTGCTCAAGGTATTATAGGGCTCCAGAACTGATCTTTGGGGCTACAGAATATACAACTGCCATTGATATGT

upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S52_55V6.1 (Physcomitrella patens), 3'ss of exon 6
---------gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgc-tcctgcgtttatgata-tga---ttgcatttt-cagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
         ||   | |   ||   |   ||||    | |  |    |   ||||  |  ||  | | || || || ||| |||   |||  || | |||||    || || || || || ||||||||||| || ||||||||  | ||||| || || |||||||| ||||| |||||||||| ||| ||||| || |
gagtctgcagtggttgctcataatatggaaattgtctcgtgcggtattcagttgaatgcgtgggtgcagcattgatcatagtgagatttgagttgtgcagGTGAAAGGGGAGCCTAATATTTCGTACATTTGTTCACGATATTACCGTGCTCCCGAGCTGATATTTGGAGCTACAGAATACACAACTGCGATTGACATAT

upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ07923 (Selaginella moellendorffii), 3'ss of exon 7
gtaagttcctttaccttctgaatttgaacttttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
||  || | |  |  |       ||| | ||  | || |  ||||  |||    |||||| ||| |    ||     |    |||||    || || |||||||||||||| || || || || |||||  | ||||| |||||||||||||| || ||||| |||||||  || || || || |
gtgggtgcttacaaataggatccttggaattcagcagctgatttg--cgt---ttcctgcttttct----tggcaaaacaaacagGTGAAAGGAGAGCCCAACATATCGTATATCTGTTCCCGTTATTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCT

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|17963611|gb|BM270358.1|BM270358
EST:     CGCAGACACATCAGTTAAAGATATGTGATTTTGGGAGCGCAAAGGTGTTG                         GTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCT
genomic: CGCAGACACATCAGTTAAAGATATGTGATTTTGGGAGCGCAAAGGTGTTGgtaagttcct ... gcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCT
EST: gi|208275795|gb|GE074257.1|GE074257
EST:     CGCAGACACATCAGTTAAAGATATGTGATTTTGGGAGCGCAAAGGTGTTG                         GTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCT
genomic: CGCAGACACATCAGTTAAAGATATGTGATTTTGGGAGCGCAAAGGTGTTGgtaagttcct ... gcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgaagatattttgatcgtatgctcctgcgtttatgatatgattgcattttcagGTTCCTGGTGAACCCAACATATCGTACATTTGCTCTCGATATTATAGAGCTCCAGAACTTATATTTGGGGCTACTGAATACACAATTGCTATTGATATGT
          ttttgat  putative branch site (score: 4)
                                              cattttc  putative PPT
                               tttatgatatgatt  TA-rich tract