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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttcactcctttgttttatctgcagtttaatttgttctacaacaaaggtaaatctgttgtaaagtgttgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC

Basic information

species Zea mays
transcript GRMZM2G065012_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 8
gtaattttcactcctttgttttatctgcagtttaa-tttgttctacaacaaaggtaaatctgttgtaaagtgttgtgt-cgctcctttgctggtaatttctgcccc---cctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
                         || ||   || ||||      ||||| |       |  | | |  ||   ||   |      |  |||   ||||| |  |     |  || |     |||||||||| ||||||||||||||||||||||||||| || ||||||| || ||||| || ||||| |||||||||||||||||||| || |||| |||||
-------------------------tgaagaaaaagtttggaactaaacaaggcctctattcctctcagttggcatgcatgacttcctaatggagctttctacgtcatgtttttccattttgtagACTAGCAGTGATTTCGATGCGAAGCCAATGGTCATGTTGCTGGGTCAGTATTCCACAGGAAAAACCACATTCATAAAGCATTTACTGAAGACAAATTATC

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 8
----gtaattttcactcctttgttttatctgcagtttaatttgttctaca-acaaaggtaaatctgttgtaaagtgttgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
    || |  |  || ||     || ||   ||   | |  | || | || ||||| || | | |      || |||  |     |   ||  |   ||| ||||        |  |     ||||| | ||| ||||| ||||| || ||||||||||||||  | |||||||| ||||| ||||||||||| || ||||| |||||||||| |     |||||
gttagtgacatatacacccaatattaattaaca---tgacatattattcatacaaatgtgattattcatacaaatgtgattatattaagtt--taagaatgtctgtggtgtgtcttt-----cagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA18G10150.1 (Glycine max), 3'ss of exon 7
----------------------------------------------gtaattttcactcctttgttttatctgcagtttaatttgttctacaacaaaggtaaatctgttgtaaagtgt-tgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
                                                  |  |   |  ||||||| || ||    || | |  |   |  || |   || ||     | ||  | |   | | | |  |||  ||   |||  |   ||  || | ||    ||||| |  || || || ||||| || || |||||  |||| |||||||||||||| || |||||||||||||| || |||||| | || ||||  |||||||
gttagtaagtgattttatttatttggtttaattgagaaaacaagacaagctactttattttttgtttcatttgttaattcaataatctaatgaccattatatataaagagaaagatatacatttaggttatttattg---attgttattcctttctcattt---cagACAAATAGTGACTTTGATGCCAAACCTATGGTTTTGCTTTTGGGTCAATACTCAACTGGGAAAACAACATTTATTAAGCATATGCTTAAAAGCAGTTATC

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA07G39450.1 (Glycine max), 3'ss of exon 8
----gtaattttcactcctttgttttatctgcagttt--aatttgt-tctacaacaaaggtaaatctgttgtaaagtgttgtgtcgctcctttgctggtaatt----tctgccc---------ccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
    || |  |  || ||     | ||  |  | | |  ||||| | |  || ||| | || ||| |    |||| ||   | |   || |      || |||    |  |                     ||   ||||| | ||| ||||| ||||| || ||||||||||||||  | |||||||| ||||| ||||||||||| |||||||| |||||||||| |     |||||
gttagtgacatatacacccaatatataaataaaatatggaatttttgtgaactacacatgttaatatcaattaaaatgacattttattcatgcaaatgtgattatattaagtttaagaatggttttggtttgtctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACAGGGAAAACAACCTTCATAAAACATTTACTAAGATGTGATTATC

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
----gtaattttc--actccttt-gttttatctgcag--tttaatttgttctacaacaaaggtaaatctgttgtaaagtgttgt--gtcgctcctttgctggtaatt-tctgcccccctccccttcaaa-----cagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
    ||||| | |  |||  ||  |    |  ||     |||  ||| |||         ||| ||    |    || |  | |   |  | || | |    | ||| || |          ||| |       |||||||| |||||||| ||||| || |||||||| ||||| ||||||||||| ||||| || ||||||||||| ||||| || || ||   |      || |
gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaagagctaaagaactcatatctatatcaccatggaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 8
gtaattttcac-tcctttgttttatctgcagtttaatttgttctacaacaaaggtaaatctgttgtaaagtgttgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
|| | ||   | |   || ||    || |  |    ||  ||      ||||    | |   || |||| | |  | |  |   |   || || | || |       |   |||     |||||| ||| ||||||||||| || || ||||| |||||  |||||||||||||||| || |||||||||||||| |||||||| || ||| | | |||||
gtgagttgggcattgcttattggtgctcctatggcgttatttaagttccaaatactattgaattctaaactat-atttgaccattgaactagttacttgt----tttttttctt-----agACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 9
-------------------------------------------------------------gtaattttcact---cctttgttttatctgcagtttaatttgttctacaacaaaggtaaatctgttgtaaagtgttgtgtc--gctcc----------tttgc-----tggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
                                                              |   | || ||   ||| |||   |  ||   |  ||  |||  ||  |   | |      | | ||| | |  ||  ||  |||||          ||||      ||| ||| | |       |  | ||    |||||    || || || ||||| || || ||||| ||||| |||||||| || || || |||||||| ||||||||||| ||||||||   |   | ||  |
gtaagtggactgagtattttagtttgtttatgatgagatgcctaaatttgttaatgatgagatgtctctcccttttcctatgtaacacatgttctaaaaaatgtgatattatgtatgctctgttctcgtagatttctgactctagctccagaagttctatttgagagtatggaaatattttttattttttctttt--gcagACACATAGTGACTTTGATGCCAAACCCATGGTTATGCTTTTGGGTCAGTATTCAACTGGGAAAACTACATTCATAAAACATTTACTCGGATGTAATTTCC

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------------------------------gtaattttcactcctttgttttatctgcagtttaatttgt-tctacaacaaaggtaaatctgttgtaaagtgttgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
                                                       |||| || | ||   ||  |  |     |||| ||||   ||||   | |   |  |     || | | || | | |       ||     |   |  ||      |     |    ||||| |  |||||||| ||||| || || ||||| ||||| |||||||||||||| || || ||||| || ||||| || ||||| || || |  |||||||
gtaagcgagaaatacacccagcttttaattgctttcatcctcagaaatagcaaaataatcttgattctaatgaatgttt----gtttgatttacatctattgctatattttaaaccatggacaatgatatataatgagcttatcacttgctgttgatgtgttatttgtt--gcagACAAATAGCGATTTTGATGCCAAACCTATGGTTATGCTTTTGGGTCAATACTCAACTGGAAAAACTACTTTCATTAAACATTTGCTGAAGAGTAGTTATC

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:     CTATCAGTTCCATGACTTCGTGTCTCCCTTGCTG                         ACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATAC
genomic: CTATCAGTTCCATGACTTCGTGTCTCCCTTGCTGgtaattttca ... cttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATAC
EST: gi|71333237|gb|DR803673.1|DR803673
EST:     GGCCCTTGGAAAAAACCTATCAGTTCCATGACTTCGTGTCTCCCTTGCTG                         ACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATAC
genomic: GGCCCTTGGAAAAAACCTATCAGTTCCATGACTTCGTGTCTCCCTTGCTGgtaattttca ... cttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATAC
EST: gi|71769027|gb|DR966964.1|DR966964
EST:     GGCCCTTGGAAAAAACCTATCAGTTCCATGACTTCGTGTCTCCCTTGCTG                         ACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATAC
genomic: GGCCCTTGGAAAAAACCTATCAGTTCCATGACTTCGTGTCTCCCTTGCTGgtaattttca ... cttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATAC
EST: gi|78124010|gb|DV542394.1|DV542394
EST:     GGCCCTTGGAAAAAACCTATCAGTTCCGTGACTTCGTGTCTCCCTTGCTG                         ACTAGCAGCGATTTCGATGCAAAGCCAGGGGTCGTGCTGTGGGGTCAATAC
genomic: GGCCCTTGGAAAAAACCTATCAGTTCCATGACTTCGTGTCTCCCTTGCTGgtaattttca ... cttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagtgttgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
                          taatttctgcccccct  CT-rich tract
                          taatttct  TA-rich tract