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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttctttcaatctttgtttttcctcaatgacttcactcctgattgataaatgtttatttatttcacagcagatttcataaaagcaatgtttcctctattcaaaactaagaattttccaatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG

Basic information

species Zea mays
transcript GRMZM2G464000_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g29450.1 (Oryza sativa), 3'ss of exon 8
gtaattttctttcaatctttgtttttcctcaatgacttcactcctgattgataaatgtttatttatttcacagca----gatttcataa----aagcaatgttt-cctctattcaaaactaagaattttc-caatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG
||||||||||  |   || | | | |  ||||||  |||| | |  |     | || ||  || | ||  || ||    | |||  | |     |||||| |||  || |||||   ||||||  ||||  ||||||  |  ||||||||||| || || |||||||||||||| || ||||| |||||||||||||| |||||||||||||||||
gtaattttctacct-cctctttctgttatcaatgttttcatttcaaag----acattttacttcactttgcaacatttagtttttgttatcatgagcaatctttgtctatattctgtactaaggtttttttcaatataatctatgcagAATGCGTTACGTCAACAAAGATTTGTTCGGGAAGTCACAATACAGTACAATCTCTGCAACGAGCCATG

upper sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 7
gtaattttctttcaatctttgtttttcctcaatgacttcactcctgattgataaatgtttatttatttcaca-gcagatttcataaaagcaatgtttcctctattcaaaactaagaattttccaatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG
                              ||  |   |  |  |  | || ||   ||||||| |  |||| || ||  || |   |    |||| | | |||  | || | |  ||  |    |||      | |||||||||||||| |||||||||||||| || ||||| |||||||||||||| |||||||| ||||| ||
------------------------------aaaaaaaactattgtattcgagaat--tttatttttcacacatgctgaactc-tgggatttgtgttgc-tatatctataaattaccatgctgtgttatt-----ttcagAATGCATTGCGGCAACAAAGATTTGTTCGAGAAGTCACAATACAGTACAATCTCTGCAATGAGCCTTG

upper sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G28530.1 (Glycine max), 3'ss of exon 6
gtaattttctttcaatctttgtttttcctcaatgacttca-ctcctgattgataaatgtttatttatttcacagcagatttcataaaagcaatgtttcctctattcaaaactaagaattttccaatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG
                       |||   ||||   || | ||  | ||||| |||  |||   || |   || || |||  ||||   ||   | |   ||  ||  |  |   |  |  ||  | |  ||    |||||||||||||| || ||||||||||| || ||||| ||||||||||||||||||||||| || |||||
----------------------gtttgtccaatatttttatcttataattgacaaaccttttcatactgaccatcaaatta-ataatttcacattctatgctcatcttatttggca--tggcctttgttctt----cagAATGCATTGCGGCAGCAAAGATTTGTACGCGAAGTTACAATACAGTACAACCTCTGCAATGAACCATG

upper sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA16G33300.1 (Glycine max), 3'ss of exon 7
gtaattttctttcaatctttgtttttcctcaatgacttca-ctcctgattgataaatgtttatttatttcacagcagatttcataaaagcaatgtttc-ctctattcaaaactaagaattttccaatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG
                       |||   ||||  ||| | ||    ||  | |||  |||   ||||   || | ||||       |  ||| |  |  ||||| |  | || |     |       | |||  | |||||||||||||| || ||||||||||| |||||||| ||||||||||||||||||||||| || || ||
----------------------gtttgtccaatatctttaactgagaatcaacaaaccttttcatattgaccatcggatt-------aataatttcacattctatgctcatcttatttggtgtggccttcgttctt-cagAATGCATTGCGGCAGCAAAGATTTGTACGTGAAGTTACAATACAGTACAACCTCTGCAATGAACCTTG

upper sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA10G31960.1 (Glycine max), 3'ss of exon 8
gtaattttctttcaatctttgtttttcctcaatgacttcactcctgattgataaatgtttatttatttcaca-gcagatttcataaaagcaatgtttcctctattcaaaactaagaattttccaatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG
                                       |||  || |    ||   |||||||    |||| |  ||  || |   |    |||| | | |||  | || | |  ||  |    | || |   |  ||||||||||||| |||||||||||||| || ||||| |||||||||||||| |||||||| ||||||||
---------------------------------agaaaaactattg-tattcaagaatttattttccacacatgttgaactc-tgggatttgtgttgc-tatatctagaaattaccatgat---gtctgttatttttagAATGCATTGCGGCAACAAAGATTTGTTCGAGAAGTCACAATACAGTACAATCTCTGCAATGAGCCATG

upper sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 3'ss of exon 7
gtaattttctttcaatctt-tgtttttcctcaatgacttcactcctgattgataaatgtttatttatttcacagcagatttcataaaagcaatgtttcctctattcaaaactaagaattttccaatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG
             ||||   ||  |||  | ||| |  | | |  || ||      | | |||||||||       | | | ||||| |  |    || |||         | |   | ||    | |        |||||||| ||||| |||||||||||||| || ||||| ||||||||||||||| | || || || || ||
-----------gtaatcacatggattttattaatcatgttagtattgttt------tatctatttattt-------gttattataaatgataatcatcttct--------ttgatggtgttttgttctt-------cagAATGCGTTGCGGCAACAAAGATTTGTACGAGAAGTCACAATACAGTACAACTTATGTAATGAACCTTG

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|211146181|gb|FK958445.1|FK958445
EST:     TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCC                         AATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAC
genomic: TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCCgtaattttct ... gttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAC
EST: gi|58029867|gb|CX725294.1|CX725294
EST:     TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCC                         AATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAT
genomic: TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCCgtaattttct ... gttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAC
EST: gi|211146180|gb|FK958444.1|FK958444
EST:     TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCC                         AATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAT
genomic: TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCCgtaattttct ... gttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAC
EST: gi|78077940|gb|DV506360.1|DV506360
EST:     TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCC                         AATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAC
genomic: TTGCTCCAGTTGCGGTTGAGCGCACAATGACGACAAGAGCTGCAGCTTCCgtaattttct ... gttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaagcaatgtttcctctattcaaaactaagaattttccaatatggttgatgcagAATGCATTGCGACAACAAAGATTTGTCCGTGAAGTGACAATACAGTACAACCTCTGCAACGAGCCATG
                                            ggttgat  putative branch site (score: 5)
                      aaaactaagaatttt  TA-rich tract