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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaaatatgaatatttaacttactatatatatgcatgaatcgttgagtaattctatcttttggctcgtttcctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA

Basic information

species Zea mays
transcript GRMZM2G406553_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g58130.1 (Oryza sativa), 3'ss of exon 3
----------------------------------------------------------gtatgcaaatatgaata-tttaacttactatatatatgcatgaatcgttgagta----attctatct-----------tttggctcgtttcctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA
                                                           ||||  |||   |||  |||    ||    || ||| |      | ||  ||     ||  ||| |            |||  | ||||  |||||||||||||| || |||||||||||||| ||||| || |||||||||||||||||||||||||| |||||||||||||| |||||| ||||||| ||||||||
gtacgtgaatgcgaatgccttttgctgttgcatatatacctgaccacattccttgtctatatgtgaatgcaaatgctttttactatcgcatgtatactgactacattctgtgtcctatcttatttgattagcaccacttgatttgttttgtatgcagTTGTCCGCACGCTTACTGGACATAGGTCAAACTGCATGTCAGTTGATTTCCATCCTTTTGGAGAATTCTTTGCCTCGGGGTCACTGGACACAAATCTGAA

upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------gtatgcaaata----tgaatatttaacttactatatatatgcatgaatcgttgag--taattctatcttttggctcgtttcctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA
                                                      ||   ||||       | ||||   | | ||| |  |  ||| |||  || |   | | ||| |   |||    ||||| |  | |||||| |||||||||||||| ||||| || |||||||  ||||| || |||||||||||||| || |||||||| ||||| || || ||||||||||| ||
gtacgcggttgcttgccatttcttttaatggttttaaaacaccaatgaaaaaagatttgaatagtctcacaaatttttttcagtattttcac-cataaattttttaaattgagtctttgacttgctatgtttctttggtagTTGTTCGTACTCTTACTGGTCATAGGTCCAATTGTACATCAGTGGACTTCCATCCTTTTGGAGAGTTCTTTGCATCTGGTTCTTTAGACACTAATCTTAA

upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------gtatgcaaatatgaatatttaacttactatatatatgcatgaatcgttgagt-aattctatcttttggctcgtttcctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA
                                                         |  | |       | | |  | | | ||| | ||      |||  || | |    ||| |   |||    ||||| |  | |||||| |||||||||||  | ||||| || |||||||  ||||| || |||||||||||||| || |||||||| ||||| || || || |||||||| ||
gtatgcagttgcttgccatttcctttaatggttttaaaacaccaatgaaaagagatttgagtagtctcacaaaatatattcattatttttaccataaaatttttaaattggatctttgacttgctatgtttctttggtagTTGTTCGTACTCTTACCAGTCATAGGTCCAATTGTACATCAGTGGACTTCCATCCTTTTGGAGAGTTCTTTGCATCTGGTTCTTTAGATACTAATCTTAA

upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 3
--------------------gtatgcaa-atatgaatatttaacttactatatat-atgcatgaatcgttgagtaattctatcttttggc-tcgtttcctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA
                    || |  || ||||||||  |   |||   |||| |  |  |       |  ||  ||| | | || |    | ||||  | |  |||||| || || |||||||| || ||||||||||| || || || || |||||||| |||||||| |||||||| ||||| ||  ||||||| ||||| ||
gtatgcacattagactttgggtgtttaatatatgaattctgttcttttgatatgttgttaaactgatatctagagattttctgttgtaatgtggttttttgtatagTTGTTCGCACGCTTACTGGCCACAGATCAAATTGCATATCTGTGGACTTCCATCCATTTGGGGAGTTCTTTGCATCTGGCTCTCTGGACACAAATCTTAA

upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 3
lower sequence: PP1S9_241V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------------------------------------------------------------gtatgcaaatatgaatatttaacttactatata----tatgcatgaatcgttgagtaa----ttctatctt-ttggctcgttt---ccta--tgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA
                                                                                    || ||||  |||  ||  |  |      ||       |  | |    |  |   | ||    ||  |||||  || |   |||   |||   ||||||||| || |||||||| || ||| ||||||||||||| ||||| ||||| |||||||| || || ||||| || || || ||  | || || ||||| ||
gtaagcttgttagagctttctctctctctcctccggtccaagtattacatgattaatttgagtttctattccatggtttgtgtggtgtgcacgtattcattctagatcatggatgcgatgcttcgtacttctaatcaggcaaaattttagatcttactgacatttttatacctgggtgcagTTGTACGCACTCTTACAGGTCATCGATCAAATTGTATATCAGTAGATTTTCATCCTTTCGGAGAGTTCTTCGCGTCGGGATCTCTAGATACAAATCTCAA

upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 3
lower sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------------------------------------gtatgcaaatatgaatatttaacttactatatatatgcat---------gaatcgttgagtaattctatcttttggctcgttt-----cctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA
                                                                            |   || |     ||| | ||||   |   | || |||         ||   | ||||    || || |  || | ||| |     |   ||||||||| || |||||||| || ||  |||||||||| || || || |||||||||||||| || || |||||||| || || || ||||| || ||||| ||
gtaagcttgcgaatgtcatctcctaggatatcagttgctttttattaacttgcgttcctattggatggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgaggtgctcgat-tactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatatgcatgaatcgttgagtaattctatcttttggctcgtttcctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA
                                       ctcgtttcct  CT-rich tract
                       taattctatctttt  TA-rich tract