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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacataattaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT

Basic information

species Zea mays
transcript GRMZM2G038848_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G038848_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os03g42110.1 (Oryza sativa), 3'ss of exon 13
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacataattaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT
||||||| |||   ||| ||  ||    |  ||| ||  | |||   |||| ||| | | || ||||||| |   | | ||     | | |||||||| ||||||||||||||||||||||||||||||| ||||||||| | || || ||||||||||||||||| ||||| ||||| |  ||||||||||| || ||||| |
gtaagtgtctt---tcatctacatgtttctcaagcatttagcaatc-taatgtcatagacttcagatgcata---atcctatttcttgt-tttcaacaatgcagATAGATAATCTTGTGAAGGGAGCATCAGGTCAGGCTGTTCAGAACCTTAATCTGATGATGGGTCTGCCAGAGAACACTGGGCTGCAATATCAACCCCTAT

upper sequence: GRMZM2G038848_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacataattaagatgcacatagaccttacaagct-atgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT
||| | | |||||  || |||||| || |||         |||||  || | ||     | | | |    |  |   ||||    ||  |  ||||||    |||||||||||||||||||||||||| |||||||||||| | || || || |||||||||||||| ||||||||||| |  ||||||||||| |||||||| |
gtatgcgtcttcaaccatctttatgcc-cat-------tgtcaaac-tagtttcttcagacttaaagatgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT

upper sequence: GRMZM2G038848_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA20G01220.1 (Glycine max), 3'ss of exon 12
------gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacataattaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT
       | | |   ||   ||   | |||||  |  || | ||  |    ||| |||| |    ||||   |  |||| |||  ||       || |      |||||||| |||||| | ||||||||||| || ||||| ||||| ||||| |||||| || | |||||| | || || ||| |||| || || |||| ||| || |
gtatgttttaattttttttctcctatatatccagctgaaat-tgtgtatttaatgatattatgatattattgttgacat-gactctaagtatgttgatgtgttgttgcagATTGATAATTTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT

upper sequence: GRMZM2G038848_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatc----acataattaagatgca--catagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT
    ||   || |||    ||| | || | ||  ||| || |  ||||  | |     |    |||| ||| |     | ||| | || |  | || |      |||||||| |||||||| ||||||||||| || ||||| ||||| ||||| |||||| || | |||||| | || || ||| |||| || || |||| ||| || |
----gtatgttaagtt--tttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgt-tgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT

upper sequence: GRMZM2G038848_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 12
------gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacataattaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT
       ||| |  | |  ||  |  || |   |       ||   || |  || | |    || | |||       ||         | |       ||     ||||||| |||||||||||||||||||| |||||||| || ||||| ||||||||| ||||||||||| |||| |||||||  || || |  ||||||||  |||
gtatgtttaaatttcctttgttcatgttttagaattccttcatatttctagtatgaaaggttattaataatcctactatcactggctaaggtctcaaatccttgctgcagATTGATAATCTTGTGAAGGGAGCTTCTGGTCAAGCCTTGCAGAATCTTAATGTGATGATGGGATTGCCGGAGAATACAGGACTTCTCTACCAGCCATTGT

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|30705886|gb|CD058958.1|CD058958
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|37397485|gb|CF636042.1|CF636042
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|6448353|gb|AW181119.1|AW181119
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|88747566|gb|DY531707.1|DY531707
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATTTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|32931445|gb|CF036257.1|CF036257
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|110202395|gb|EC884292.1|EC884292
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|32912849|gb|CF017661.1|CF017661
EST:     GGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: GGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|32930019|gb|CF034831.1|CF034831
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|71762552|gb|DR960489.1|DR960489
EST:     TGAATGTTTATGAGGATAGAATACCTGGAAGGGCCATCATCATTTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATTTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|148958090|gb|EC904281.2|EC904281
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|74234670|gb|DT642584.1|DT642584
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|60394782|gb|DN227652.1|DN227652
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|87155331|gb|DY400120.1|DY400120
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|26558690|gb|CA830925.1|CA830925
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|33093061|gb|CF053055.1|CF053055
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|60337236|gb|DN204209.1|DN204209
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|148942778|gb|EC887805.2|EC887805
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|19437017|gb|BM953427.1|BM953427
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|32931562|gb|CF036374.1|CF036374
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|40337039|gb|CK371109.1|CK371109
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|78080159|gb|DV508571.1|DV508571
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATTTTTGTC                         ATAGATAATTTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|22473066|gb|BU037546.1|BU037546
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|5706123|gb|AI941899.1|AI941899
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAG
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAG
EST: gi|211026572|gb|FL468584.1|FL468584
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|78079273|gb|DV507685.1|DV507685
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|148943027|gb|EC888077.2|EC888077
EST:     TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATTTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: TGAATGTCTATGAGGATAGAATACCTGGAAGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
EST: gi|67010559|gb|CO439308.1|CO439308
EST:     GAATGTCTATGAGGATAGAATACCTGGANAGG-CCATCATCATCTCTGTC                         ATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT
genomic: GAATGTCTATGAGGATAGAATACCTGGA-AGGGCCATCATCATCTCTGTCgtaagtgcct ... aacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcacataattaagatgcacatagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT
                          accttac  putative branch site (score: 3)
       ataattaagat  TA-rich tract