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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGTCAAGATACATTACCATGTTATCTGGTGTTTTGATTTTAATTCATGGCTTCTGTGCTTTGCAGACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacatacaaacactttctttatgttatcctgaacaaatcttggttatctaattcacctaaaatgctcatctgtgaaacag

Basic information

species Zea mays
transcript GRMZM2G089454_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089454_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g49980.2 (Oryza sativa), 5'ss of exon 3
TCAGTCAAGATACATTACCATGTTATCTGGTGTTTTGATTTTAATTCATGGCTTCTGTGCTTTGCAGACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacatacaaacactttctttatgttatcctgaacaaatcttg--gttatctaattcacctaa--aatgctcatctgt-----gaaacag-
                                                                   |||||||||||||| || ||||||||||||||||||||||||||  |   |||  |   | |||   || | |  |  |   | ||||||||| |||| |   || ||  ||  |     |||||   
-------------------------------------------------------------------ACAGGTGGCTACAGCGAAGACATGATTCCAACTgtatgtacatatcactgcttcttaagtcttaatttgtagaggtagtattgctatctaattgacctgacttatacttgtccatattctgaaaccag

upper sequence: GRMZM2G089454_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA14G39540.1 (Glycine max), 5'ss of exon 3
TCAGTCAAGATACATTACCATGTTATCTGGTGTTTTGATTTTAATTCATGGCTTCTGTGCTTTGCAGACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacatacaaacactttctttatgttatcctgaacaaatcttggttatctaattcacctaaa-atgctcatctgtgaaacag---------------------------
                                                                   || || ||||||||||||||||||||||||||||| ||||  ||      |||| || ||   ||| ||||    | |||  ||| | ||     | |  ||| |   || || ||  |                           
-------------------------------------------------------------------ACTGGGGGCTACAGTGAGGACATGATTCCAACTgtgtgtatctagctttgcttt-ttgattgaatcttgaat---tgttgcatatttgatgattgtgagcatgtttgcctttgtaattgaaatataattcttggtgttaaacgcag

upper sequence: GRMZM2G089454_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 3
TCAGTCAAGATACATTACCATGTTATCTGGTGTTTTGATTTTAATTCATGGCTTCTGTGCTTTGCAGACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacatacaaacactttctttatgttatcctgaacaaatcttggttatctaattcacctaaaatgctcatctgtgaaacag---------------------------
                                                                   || || ||||||||||||||||||||||||||||| ||||  ||      |||| || ||   ||| ||||    |    |||     |||     |  ||| |   || || ||  |                           
-------------------------------------------------------------------ACTGGGGGCTACAGTGAGGACATGATTCCAACTgtgtgtatctatctttgcttt-ttgattgcatcttgaatggttacatgtttgaagattg--tgagcatgtttgcctttgtaattgaaatataattcttggtgttaaacccag

upper sequence: GRMZM2G089454_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv14s0006g01090.t01 (Vitis vinifera), 5'ss of exon 4
TCAGTCAAGATACATTACCATGTTATCTGGTGTTTTGATTTTAATTCATGGCTTCTGTGCTTTGCAGACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacatacaaacactttc----tttatgttatcctgaacaaatcttggttatctaat---tcacctaaaatgctcatctgtga--aacag
                                                                   ||||| |||||||||||||||||||||||||||||| |||  |  |  |    |     |  || | |   || |  |  ||| ||| |   ||   | | |    || ||   || |||  |||||
-------------------------------------------------------------------ACAGGAGGCTACAGTGAGGACATGATTCCAACTgtaggtatctttatccggggttaaattgaatttcacattgtatgatccttagttcttagatatcttatcagggattcttggctctgacaaacag

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|5762129|gb|AI967177.1|AI967177
EST:     CAGGTGG-TACAGTGAGGACATGATTCCAACC                         GTAGGCTTCAATATGCGGAAAATCNCCAAGGGGAATGTCNCAATTAAACTT
genomic: CAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacat ... tgtgaaacagGTAGGCTTCAATATGCGGAAAATCACCAAGGGGAATGTCACAATTAAACTT
EST: gi|5846814|gb|AI999897.1|AI999897
EST:     ACAGGTGGCTACAGTGAGGACATGATTCCAACC                         GTAGGCTTCAATATGCGGAAAATCACCAAGGGGAATGTCACAATTAAACTT
genomic: ACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacat ... tgtgaaacagGTAGGCTTCAATATGCGGAAAATCACCAAGGGGAATGTCACAATTAAACTT
EST: gi|5296277|gb|AI783047.1|AI783047
EST:     ACAGGTGGCTACAGTGAGGACATGATTCCAACC                         GTAGGCTTCAATATGCGGAAAATCACCAAGGGGAATGTCACAATTAAACTT
genomic: ACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacat ... tgtgaaacagGTAGGCTTCAATATGCGGAAAATCACCAAGGGGAATGTCACAATTAAACTT
EST: gi|78022702|gb|DV491089.1|DV491089
EST:     ACAGGTGGCTACAGTGAGGACATGATTCCAACC                         GTAGGTTTCAATATGCGGAAAATCACCAAGGGGAATGTCACAATTAAACTT
genomic: ACAGGTGGCTACAGTGAGGACATGATTCCAACTgtatgtacat ... tgtgaaacagGTAGGCTTCAATATGCGGAAAATCACCAAGGGGAATGTCACAATTAAACTT