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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgatatcttgcaatgttatgtcattaatttgaataatttaacatcctgatcacttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT

Basic information

species Glycine max
transcript GLYMA19G39210.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G39210.3 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os10g27230.3 (Oryza sativa), 3'ss of exon 11
------------------------------------gtgtgata-tcttgcaatgttatgtcattaatttgaataatt-------taacatcctgat-cacttgtttatga--agtgatatcttgtgt-tttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                     | | ||| | ||| |   | |    |    ||| ||  |||       ||   || |||  || ||  | |||        |  |||  || |||||||||||||||||   |||||||| ||| ||||  | ||||||||||||||||| || |||||||| || |||||||||||||||||||| || ||||||||
gtcagttcctggaccagtttatatctgtatgctttgatattataattttgtagcttcagtaaacatcttttaaggattacacagctagtgtcatgaaacatttaatgatggcccacacttgctttcgtatttcagCGGATTCATTGTCAGTGGAGTCGTTGTTGGAACTTTTGGATGAGGAAAGTTTAAGAAAAGACACGGCCCTTCCTTCTCCTGAATGGTCTTCGGATCATAT

upper sequence: GLYMA19G39210.3 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g07080.1 (Oryza sativa), 3'ss of exon 11
-------gtgtga-tatcttgcaatgtta--tgtcattaattt--gaataatttaacatcctgatcacttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
       |||  | | | ||| |||| |   |||  |   ||   |||||    || ||    |  | ||   | || | || ||| ||   ||| |||||||||| ||    ||||| || ||||||||  |  |||||||||| || ||  |||||||||| || |||||||| ||||||||||| || ||||||||
gtttgtggtgaaactttgttgaaatgctgcctgtggtgtgttctggaatatgcaaatattgctag-atttacctttgcattg-tattttccattt-cagCGGATTCGTTATCAGTGGAATCGTTGCTGGAACTTCTGGATGAGGATAGCTTACGGAAAGACACTGCGCTTCCTTCACCTGAATGGTCATCAGATCATAT

upper sequence: GLYMA19G39210.3 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G124051_T01 (Zea mays), 3'ss of exon 11
-----------------------------------------------------------------------------------------gtgtgatatcttgcaatgttatgtc-attaatttg-aataatttaacatcctgatcac-ttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                                                                          | |    | | |    | ||| ||  || || || ||||| |  | ||  || | || |||| | | |     |    |    |||||||||||||||||  ||| ||||||||  ||||| | ||||||||||| || ||||| |||||||| || |||||||||||||||||||| || ||||||||
gttagtgcttaaattcttggactggttcaagcgcttgctctatctcttccctttactttggttcaagcgcttggccgcttgcgctatctcttttccttttagtttggctatctctgttgatctggaataagtagatattgtgttaacattgtcttttacaatgtgctcttctatttcagCGGATTCATTGACTGTAGAGTCATTATTGGAGCTGTTGGATGAGGATAGCTTGAGAAAAGACACGGCTCTTCCTTCTCCTGAATGGTCATCGGATCATAT

upper sequence: GLYMA19G39210.3 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G043509_T01 (Zea mays), 3'ss of exon 10
-------------gtgtgatatcttgcaatgttatgtcattaatttgaataatttaacat--cctgatcacttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
              |    |||||  || | || ||  || |  || ||     |||     | |  ||  ||| | ||||     | | || |   ||||||||| || |||   ||||| |||||  ||||  | ||||||||||||||||| || ||||||||||| ||||| ||||||| |||||| || ||||| ||
tctgtgtttgcagcttctgtatctc-catttttctggaataagattaaaggcactaattgtgcttattcttttgataatgaccatgtttgttct-ccttcagCGGACTCCTTGACAGTGGATTCATTATTGGAACTTTTGGATGAGGAAAGTTTAAGAAAAGACACAGCTCTTCCATCTCCTGGATGGTCATCAGATCACAT

upper sequence: GLYMA19G39210.3 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0007g07020.t01 (Vitis vinifera), 3'ss of exon 10
---------------------------------------gtgtgatatcttgcaatgt----tatgtcattaatttgaataatttaacatcctgatcacttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                        | |  ||| |    ||||     ||     || ||||     ||    ||  | |  | || | ||  || | | || ||||| || |||| || || ||    ||||| |||||| ||||  | ||||||||||| || ||||| ||||||||||||||||||||||| || |||||||||||||||||
gtaatctttttcctacatgtcggtttgcatctttttcctatattttatttacacatgtgcttcatacttgtagtttgtgccgttattgatgtttagga-ttctctaataaataagat-ttgtggttccagCCGACTCTTTAACGGTGGAATCATTGTTGGAACTCTTGGATGAGGATAGCTTGAGAAAAGACACAGCACTTCCTTCTCCGGAGTGGTCCTCTGATCATAT

upper sequence: GLYMA19G39210.3 (Glycine max), 3'ss of exon 10
lower sequence: EFJ35408 (Selaginella moellendorffii), 3'ss of exon 10
gtgtgatatcttgcaatgttatgtcattaatttgaataatttaacatcctgatcacttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
  ||||    |||   |      || |  |  ||||    || |||     |  || | ||| |         |  | ||||| ||||||||||| | || ||||| ||| | || ||| | ||||| ||||| || ||| ||||||||||||| || |||||||| || ||||| || ||||||||
--gtgagtgtttggcct------tcctggagatgaagcgattgacacaagcaaaacgttttttt---------ttctctgtttgcagCGGATTCAATAGTGGTGGATTCACTACTCGAGCTTTTGGACGAGGAGAGCTTGCGGAAAGACACAGCGCTCCCTTCTCCAGAGTGGTCGTCAGATCATAT

upper sequence: GLYMA19G39210.3 (Glycine max), 3'ss of exon 10
lower sequence: EFJ17358 (Selaginella moellendorffii), 3'ss of exon 10
gtgtgatatcttgcaatgttatgtcattaatttgaataatttaacatcctgatc-acttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                ||| |  ||  |      |||  ||      |  | ||  | |  | ||||| ||||||||||| | || ||||| ||| | || ||| | ||||| ||||| || ||| ||||||||||||| || |||||||| || ||||| || ||||||||
-------------------------------gtgagtgtttagatgaagcgattgacacaagcaaaacgtttttttctctgtttgcagCGGATTCAATAGTGGTGGATTCACTACTCGAGCTTTTGGACGAGGAGAGCTTGCGGAAAGACACAGCGCTCCCTTCTCCAGAGTGGTCGTCAGATCATAT

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|18732588|gb|BM527126.1|BM527126
EST:     AAATGTAACTAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTT
genomic: AAATGTAACTAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaataatttaacatcctgatcacttgtttatgaagtgatatcttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGCTGGAGTTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
              tcctgat  putative branch site (score: 3)
                                              tgttttc  putative PPT
     aatttaacat  TA-rich tract