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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAGTAATGAAATGGCTGGGATATATTCAGCCGTCCTATCTACCGTTACCTGA

Basic information

species Zea mays
transcript GRMZM2G089630_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089630_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 3'ss of exon 2
gtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtcta-attaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAGTAATGAAATGGCTGGGATATATTCAGCCGTCCTATCTACCGTTACCTGA
                                          |||||||    || |       |  ||  | | |    | |  |     |  | || |   |  |  | |||  |  |||||   |||    |  ||||   |        ||| ||||||| ||   | ||||||| ||||  ||||||||||| ||||| ||||| ||||| || |  ||||| |||||||||||||||||||||||||||||||||||||| ||||||||  ||||  | || ||
------------------------------------------gtacgat----aaattgataatgctttattatttactcata--tgtgtgatcacttgg--aaagatgaatctgtaacaaact-cagct----actgaacacatg-------cttgtactaatatggggg-tgctatt-gcttgtacagCTACAACATTGACTGGACTGCATTTTGCAACCACGACTTTGATGACATTAGTAATGAAATGGCTGGGATATATTCAACCGTCCTACTTACCAGTGCCAGA

upper sequence: GRMZM2G089630_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 3'ss of exon 2
gtaagaccgtgcccaacctttcgttcctataaccgcgtacga-gtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacg-attttgctgagaaccagtctaa-ttaaactatggctgtgcatagaaccagtctgatcgtcttatactaatt-tgttcgctgctatttgcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAGTAATGAAATGGCTGGGATATATTCAGCCGTCCTATCTACCGTTACCTGA
                                    ||| ||  | | ||   |   |||| || |  |   ||       |   ||   |  |   | ||   || |    | ||||    |||||| | ||||||   |||||||| |||  | || | |||||  |||   |   | | || ||   |||||||||| ||||| ||| | ||||| || |  || ||||||||||||||||||||||||||| ||||| |||||||||| |||||| |||| || || ||
------------------------------------gtaagacatgctataattc-ctcactcgtggttgaattgtcaagaatgccttgtccgcacgtcttatggatagttggactaaaccgaactatcgttgtgcagcaaaccagtcagatt-ttttgtgctaatgatgtgttccattgtgtgtttgtgcagCTACAACATTGACTGGATTGCATTTTGCAACCACAACCTTGATGACATTAGTAATGAAATGGTTGGGACATATTCAGCCATCCTATTTACCATTGCCAGA
















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|211182574|gb|FL404769.1|FL404769
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTNGTT-CG                         CTACAACGTTGACTGGACTTCATTT
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTT
EST: gi|24462536|gb|BM660067.1|BM660067
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|148965218|gb|EE016025.2|EE016025
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211127243|gb|FL371391.1|FL371391
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTRGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211219466|gb|FL394123.1|FL394123
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211212172|gb|FL397455.1|FL397455
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211059840|gb|FL382528.1|FL382528
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACYTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211163062|gb|FL403922.1|FL403922
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTRGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211125396|gb|FL373706.1|FL373706
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211395001|gb|FL377443.1|FL377443
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211269202|gb|FL409758.1|FL409758
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACC
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACC
EST: gi|211421251|gb|FL404519.1|FL404519
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTT-CG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211439743|gb|FL418515.1|FL418515
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTGCATTTCGCGATGACGACCTTGATGACATTA
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTT-CATTTCGCGATGACGACCTTGATGACATTA
EST: gi|211231674|gb|FL380035.1|FL380035
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTDGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|148931222|gb|EC873991.2|EC873991
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211030447|gb|FL427837.1|FL427837
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTWGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211403472|gb|FL414959.1|FL414959
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGAC
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGAC
EST: gi|211421497|gb|FL416796.1|FL416796
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTT-CG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAGTAATGAAATGGCTGGGATATATTCAGCCGTCCTATCTACCGTTACCTGA
                      tactaat  putative branch site (score: 1)
                                          tttgcttc  putative PPT
                   ttatactaatttgtt  TA-rich tract