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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctgttcgactcctatgtctctatcaatcacacttgactccattcagtacgtatctttcccacgcatcctctcattcctacaacacctgctttttgccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCTGACATGCCATACAGTGGCCTGTCATCGTTCGGAACAGCATTTTTGTCCA

Basic information

species Zea mays
transcript GRMZM2G065012_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G065012_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 10
gtaagttctgttcgactcctatgtctctatcaatcacacttgactccattcag---tacgtatct--ttcccacgcatcctctcattcctacaacacctgctttttgccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCTGACATGCCATACAGTGGCCTGTCATCGTTCGGAACAGCATTTTTGTCCA
||| ||||| |  |      |||| || ||        | | |||    |  |   ||| || |   |  ||||  ||| || | | || |  | || | | | |  |  | |||||||||||| || ||||||||||| ||||||||||| || ||||| ||||| ||||||||||| |||||| ||||||| || || ||||||||| | || |
gtaggttctatatggag---atgtgtcaatttgctttgcctaacttttgtttgttctacctaacatatctccactgatcttcacttcccaatgatacat-cctctcactactgcagTCTGGACCTGATGAAAGATGCATCCCTGGAAACACAATTGCCGTGCAAGCAGACATGCCATATAGTGGCTTGTCATCTTTTGGGACAGCATTTCTATCAA

upper sequence: GRMZM2G065012_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA18G10150.1 (Glycine max), 3'ss of exon 10
gtaagttctgt-tcgactcctatgtctctatcaatcacacttgactccattcagtacgtatctttcccacgcatcctctcattcctacaacacctgctttttgccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCTGACATGCCATACAGTGGCCTGTCATCGTTCGGAACAGCATTTTTGTCCA
 ||   |  || |  | |   || | |  |  ||| | | ||       |   | |  ||  | |    |   |  |      |  |  | |      |||||    |  |||||||||| || |||||| |||||||||| || || || || |||||||| ||||||||||  ||||| ||  || | || || ||| ||||||||||||
-tagcattagtattaagtttaatatgttga--aatgatagtta----tgtagggaaattaattgttgtgctagtttttaagagctaattatag-----ttttgtttacatagTCTGGACCTGATGAAAGAAGCATTCCTGGCAATACTATTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGTACATCATTTTTGTCCA

upper sequence: GRMZM2G065012_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 10
gtaagttctgttcgactcctatgtctctatcaatcacacttgactccattcagtacgtatctttcccacgcatcctctcattcctacaacacctgctttttgccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCTGACATGCCATACAGTGGCCTGTCATCGTTCGGAACAGCATTTTTGTCCA
       || ||  |||  |  || |      ||     |  | |   |||  |    ||||||||||    |  | ||||    ||  |||      |         ||||||||||| || |||||| | |||||||||||||| || || || ||||| |||||||| |||||||| ||| || | || ||||| |||||||||||||
-----ggcttttttactttttagttt-----gatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcact-cactaatcctgcttttatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA

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|50323441|gb|CO518567.1|CO518567
EST:     GCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACT                         TCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCT
genomic: GCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACTgtaagttctg ... gccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCT
EST: gi|78124010|gb|DV542394.1|DV542394
EST:     GCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACT                         TCTGGACCAGACAAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCT
genomic: GCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACTgtaagttctg ... gccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatctttcccacgcatcctctcattcctacaacacctgctttttgccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCTGACATGCCATACAGTGGCCTGTCATCGTTCGGAACAGCATTTTTGTCCA
                                       ctttttgcc  CT-rich tract
                                        ttttt  TA-rich tract