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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC

Basic information

species Zea mays
transcript GRMZM5G814700_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 13
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                              ||| ||     |||  | ||  |  ||  |||||| ||| |||| || | | || | ||||||  | ||| ||  ||     | ||  || ||  |  |  | |  |||| ||||  || ||||| || |||||||| ||||||||||||||||| |||||||||||||||||||| ||||||||||||||| |||| || |||||||| ||||
----------------------------------------------ggcaat---agcttacgttctgc--atgcggcttgtcaactttggacattg-tacattatccaatttgaa-ataaat-----caatattgtgccctcatccctt--ttttgcagACGTTCAATGGCAAGAAGTGGGAAAAGTTTAACAGTGAGAAAGTGGCATCACTTGCTTATGCTAGAATCCAAGGGAAATCAGCTCTTATTGCTCACTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G01040.1 (Glycine max), 3'ss of exon 13
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                               | | ||| || |||       |||||       || |  | ||||||   || || | |   |     |  | |||| |  |||     ||  ||         ||||| |||  |||| |||| ||||| |||||||||||||| ||||| || || || |||||||| |||||| |||| ||||| |||    | || |||||||||||||
-----------------------------------------------gttgtttggatttt-------cttatgctttgagctatctatgtact---atgaattttgggttcctcatgttgatg-gaactaaataaagaaat---------gttttgcagGCTTTTGATGGGAAAAAATGGGAGAAGTTTAATAGTGAAAAAGTAGCCTCACTTGCCTATGCCCGAATTCAAGGAAAAGGTTCTCTTATTGCTCATTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G28860.1 (Glycine max), 3'ss of exon 5
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctgga-acatggatg-tgtgctatc---ctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                    || | | |||||  | |     |    |||||  |   ||   ||  ||| || || |   |||| ||   ||     | |||   |   ||| |||     ||||    | |  |     | |  |||   ||  |||| || || |||||||| || ||||||||||| ||||||||||| || |||||  | || ||||||||| |||| || |||||||| ||||
------------------------------------gt-ctgctatggaaaatgatgatgacaatcaaaatgattg--ctgttaaacttataatcacataacattcacacacacacacacataccctgtactaatagactgaagcttatgatgcaattctggcagGTGTTCGATGGGAAGAAATGGGAGAAATTCAACAGTGAGAAAGTGGCATCACTAGCATATGCTCGTATACAAGGGAAAGCAGCTCTCATTGCTCACTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G51690.1 (Glycine max), 3'ss of exon 4
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgat--caacttatatggct--tgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctga---gctattttttcat-cgttttt--cagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                           |||| ||||    | |  ||||  |||   | |||  |  ||  ||| || || |   | | || || || | |  ||| | ||     || | || |    |||  || | || | ||| |  |||   || ||||| || || |||||||| || ||||||||||| ||||||||||| || |||||  | || ||||||||| |||| || |||||||| ||||
------------------------------------------gtatg-ctatacaaaatgatgatgacaatgaaaatgattgctgttaaacttataatc--acataacattca-cagacacacgcatacacactgtactaatagactaacttatgatgcatttctggcagGTGTTCAATGGGAAGAAATGGGAGAAATTCAACAGTGAGAAAGTGGCATCACTAGCATATGCTCGCATACAAGGGAAAGCAGCTCTCATTGCTCACTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G37810.2 (Glycine max), 3'ss of exon 9
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                       ||  |   | | |    |  ||   ||| |||||  | | || | ||    ||  |||   ||||   | |||     |   | | | | |    |    || || |||    |  ||  |    |   || | |||  |||| |||| ||||| ||||||||||| |||||||| ||||| |||  ||| || |||||| |||| ||||| ||| | || || |||||||||||||
-----------------------gttatttggaaacccttatgtaatactaatttga--tataattatct---gtgatttg---aattctgagttcatctga---ttctttttgtttctaagagt-tgatatatctaa-tagataaggaatattgtacagGCTTTTCATGGGAAAAAATGGGAGAAGTTCAACAGTGAAAAGGTAGCAGTACTCGCCTATGCCCGAATTCAAGGAAAATCTGCTCTTATTGCTCATTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G61960.2 (Arabidopsis thaliana), 3'ss of exon 12
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                                                        ||  |  |   |    ||   ||   ||     |   ||       |||  | |   |  |   |     ||    |    ||  |||   |||||||| ||||||||||| ||||| || || |||||||||||| | ||| | |||||  | ||||||||||||||||| || ||||| |||||||
-----------------------------------------------------------------------gtacagtctcatattgctgctttttcttatggcttttgtcct---tttgggagagcattggctaaaagctcttaaaaaaacattcacagGCATTTAATGGCAAAAAGTGGGAAAAGTTCAATAGCGAGAAGGTGGCAACGCTTACGTATGCTCGTATCCAAGGGAAAACAGCTCTTATTGCCCATTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv01s0150g00090.t01 (Vitis vinifera), 3'ss of exon 14
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgttttt--cagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                                  | |   || |   |  |  || ||||  || ||  ||| |  ||||  |  | |    | ||  |  |||  |      ||     |   | |||     |  ||||  |||   || ||||| || || ||||||||||| || || || ||||||||||||||||| |||||| | || || || ||  | || || ||||| |||||||
-------------------------------------------------aaataccacctaaaag-agtttgtatg--ttacc--attagagcttctctcgagt---tacct--attatgatt---cattacttgaaaaaaatttaaacccaattttggcagGCATTCAATGGAAAGAAATGGGAGAAGTTCAATAGCGAAAAGGTGGCATCACTTGCATATGCCCGCATACAGGGAAAGGCTGCTCTCATTGCCCATTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 13
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttat-atggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagct-attttttcat-cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
               |  |||   ||| | ||||   |  | ||||   || |     ||| |     |  |  |  ||||      |    | ||  ||||  | | || |||  | |||||  || |   | || | |  | | | ||||   |||  |||   || ||||||||||||||||||||||| |||||||||||||||||||| ||||| |||||  |||| ||||| ||||| || || |||||||||||||
-------------gttagaatccatgc-attgta--atataattatacttaatacttttttcggctttcaaaggaaagcttcttgtctacagaatttcataaggtctgcaactg--atatggac-tgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGTAAAAAGTGGGAGAAGTTCAACAGTGAGAAGGTGGCATCTCTTGCATATGCTCGAATTCAAGGAAAAACTGCTCTTATTGCTCATTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttat-atggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagct-attttttcat-cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
               || |||   ||  | ||||   |  | ||||   || | |   ||| ||    |  |  |  ||||      |    | ||  ||||  | | || |||  | |||||  || |   | || | |  | | | ||||   |||  |||   || ||||| ||||||||||||||||| || ||||||||||||||||| ||||| |||||   |||  |||| ||||| || || | |||||||||||
-------------gtttgaatccatgg-attgta--atataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactg--atatggac-tgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ28200 (Selaginella moellendorffii), 3'ss of exon 10
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                                                                             |||||| || | ||   ||      ||| |||     |||||  | |  |   ||   |  |||||||||||||| || || |||||||||||||| ||||| || ||||| || || || || || ||  | ||||| || ||  | || ||| | || || ||||
--------------------------------------------------------------------------------------------gttcgatcaattctctcgctc--ctctggttgta----atcctt-gttggtggctctgtgactttcagAGTTTTAACGGCAAGAAGTGGGAGAAGTTCAACAGCGAAAAGGTTGCTTCTCTCGCCTACGCACGGATCCAGGGCAAGGCCGCGCTGGTCGCACACTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ16044 (Selaginella moellendorffii), 3'ss of exon 8
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgcta--tcctgagctattttttcatcgttttt-cagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                                                                         || ||  | | ||| |   |   |  |  |   |  |   |   ||   | ||  |  ||| | |||||  ||||  || ||||| || || ||||||||||||||||| |||||||||||||| || || || ||  | |||||||| ||  | || ||||| || || ||||
-----------------------------------------------------------------------------------------gttctctg-tgaaaaagagagaggagattttcctacgacttggttctaaaacttgtcattctttgttttcacagACGTTCAATGGCAAGAAATGGGAGAAGTTTAACAGCGAGAAGGTGGCATCGCTCGCGTACGCGCGGATCCAAGGCAAGGCCGCGCTGATCGCGCACTTCC

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ29695 (Selaginella moellendorffii), 3'ss of exon 8
gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttatatggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                                                                             |||||| || | ||   || |    ||| |||     |||||  | | ||   ||   |  |||||||||||||| || || |||||||||||||| ||||| || ||||| || || || || || ||  | |||||||| ||  | || ||| | || || ||||
--------------------------------------------------------------------------------------------gttcgatcaattctctcgctcg--tctggttgta----atcctt-gttgttcgctctgtgactttcagAGTTTTAACGGCAAGAAGTGGGAGAAGTTCAACAGCGAAAAGGTTGCTTCTCTCGCCTACGCACGGATCCAAGGCAAGGCCGCGCTGGTCGCACACTTCC

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|22542340|gb|BU092793.1|BU092793
EST:     ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGGTTTATCAG                         AGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
genomic: ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAGgtgagaatta ... cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
EST: gi|22472602|gb|BU037082.1|BU037082
EST:     ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG                         AGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
genomic: ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAGgtgagaatta ... cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
EST: gi|26558461|gb|CA830696.1|CA830696
EST:     ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG                         AGTTTTAATGGTAAAAAGTGGGAGAAGCTTAACAGCGAGAAGGTGGCATCA
genomic: ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAGgtgagaatta ... cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
EST: gi|211008041|gb|FL362435.1|FL362435
EST:     ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG                         AGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
genomic: ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAGgtgagaatta ... cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
EST: gi|33093066|gb|CF053060.1|CF053060
EST:     ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG                         AGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
genomic: ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAGgtgagaatta ... cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
EST: gi|32867814|gb|CF007496.1|CF007496
EST:     ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG                         AGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA
genomic: ATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAGgtgagaatta ... cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccatctggaacatggatgtgtgctatcctgagctattttttcatcgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
                                    ttttttcatcgttttt  CT-rich tract
                                  tattttttcat  TA-rich tract