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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgagtgccaatcactttcttctcccttttcagttctatcgataccatccaatgggaatgcacatatgtttgacatatttatcttcctgtttcccatcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAAGGTGATCAGACGCATGTGTCGACACGGGTGATGGGAACCTACGGTTATG

Basic information

species Zea mays
transcript GRMZM2G099754_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g02810.1 (Oryza sativa), 3'ss of exon 4
gttgagtgccaatcactttc----ttctcccttttcagttctatcgataccat-ccaatgggaatgcacatatgtttgacatatttatcttcctgtttcccat-cacc--cgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAAGGTGATCAGACGCATGTGTCGACACGGGTGATGGGAACCTACGGTTATG
|||||||  || |   | ||    |  |   ||||   | || ||  | | || |   |||||||    | || |||  |||| | |  ||  | |||    | |||   | |||||||||||||| ||||| ||||||||||| || ||||||| |||||| ||||| ||||| || ||||| || ||||||||||||||||| || |||||||
gttgagtagcatttcttgtcaatgtcttgttttttttttcctttctcttctatgctgttgggaatatgtaaatatttttcataataacatttatcttttatttacacttacacagGATTATACTGCTAAACTCTCTGACTTTGGTCTGGCAAAAGCTGGCCCAGAAGGCGATCAAACCCATGTATCAACACGGGTGATGGGAACATATGGTTATG

upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g02830.2 (Oryza sativa), 3'ss of exon 4
gttgagtgccaat------cactttcttctcccttttcagttctatcgataccatccaatgggaatgcacatatgtttgacatatttatcttcctgtttcccat-cacc--cgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAAGGTGATCAGACGCATGTGTCGACACGGGTGATGGGAACCTACGGTTATG
|||||||  || |      || | |||| |   |||||  |||| |      ||||   |||||||    | || |||  |||| |    ||  | |||    | |||   | |||||||||||||| ||||| ||||||||||| || ||||||| |||||| ||||| ||||| || ||||| || || |||||||||||||| || |||||||
gttgagtagcatttcttgccaatatcttgttttttttcctttctcttctatgcatctgttgggaatatgtaaatatttttcataatagcatttatcttttatttgcacttacacagGATTATACTGCTAAACTCTCTGACTTTGGTCTGGCAAAAGCTGGCCCAGAAGGCGATCAAACCCATGTATCAACTCGGGTGATGGGAACATATGGTTATG

upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv08s0056g00150.t01 (Vitis vinifera), 3'ss of exon 4
gttgagtgccaatcactttcttctcccttttcagttctatcgataccatccaatgggaat---gcacatatgtttgaca--tatttatcttcctgtttcccatc--acccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAAGGTGATCAGACGCATGTGTCGACACGGGTGATGGGAACCTACGGTTATG
     ||    | || ||  |    ||   | ||      |  |    ||  || |  ||   |     ||| || ||   | |||| | | ||  |  ||     | |  ||||||||||| ||||| || ||||||||||| || ||||||| ||| ||  |||||||| |||| ||||| || || || || ||||| ||||| |||||||
-----gtaagtagcatttcttaaaaccacattagccaagacatttttttctcattgccatcatgggagaatgcttcactcctgtttaccctgctaatcaccggtgaatctacagGATTATACAGCCAAGCTTTCTGACTTTGGGCTTGCAAAAGCTGGACCACAAGGTGATGAGACCCATGTATCAACTCGTGTAATGGGTACCTATGGTTATG

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|78089252|gb|DV517626.1|DV517626
EST:     GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
EST: gi|149096770|gb|EE182550.2|EE182550
EST:     GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
EST: gi|22489206|gb|BU049116.1|BU049116
EST:     GAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: GAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
EST: gi|78089253|gb|DV517627.1|DV517627
EST:     GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
EST: gi|76011906|gb|DT939076.1|DT939076
EST:     AGAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: AGAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
EST: gi|6564164|gb|AW231786.1|AW231786
EST:     GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
EST: gi|67032695|gb|CO461444.1|CO461444
EST:     GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
EST: gi|6637068|gb|AW261340.1|AW261340
EST:     GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCC                         GATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA
genomic: GGCCCGTCATCTACAGAGATTTCAAGACATCAAACATTCTGCTGGACTCCgttgagtgcc ... tcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgggaatgcacatatgtttgacatatttatcttcctgtttcccatcacccgcagGATTATACTGCCAAACTGTCTGACTTTGGCCTCGCAAAAGATGGCCCTGAAGGTGATCAGACGCATGTGTCGACACGGGTGATGGGAACCTACGGTTATG
                gtttgac  putative branch site (score: 4)
                          tttatcttcctgtttc  putative PPT
                 tttgacatatttat  TA-rich tract