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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcatctttacaccccactgttcctgattctctacactagagtttttctaacatggtttcaccttcaacagATGATGTGGCGCCTCAATTTCTTTGTTATATTCTGCTGCATTGTCCTGAACAATGATTATACACTCTATTATATTTGTCCTATGCACACCCTTTTCACCC

Basic information

species Zea mays
transcript GRMZM2G020721_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020721_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 3'ss of exon 7
gtgcatctttacaccc--cactgttcctgattctctac------actagagtttttctaacatggtttcaccttcaacagATGATGTGGCGCCTCAATTTCTTTGTTATATTCTGCTGCATTGTCCTGAACAATGATTATACACTCTATTATATTTGTCCTATGCACACCCTTTTCACCC
|| |||  ||| ||||  || |   | | ||||| |        | |||    || || ||||| |||||||||  |||||||||||||||||||||||| || ||   |||||| || ||||| || || ||||| || || |||||||||||||| ||||||||||| ||||| ||||
gttcattcttagacccttcattccccttcattctttcttccataagtaggaccttcctgacatgttttcacctt-gacagATGATGTGGCGCCTCAATTTTTTCGTGGCATTCTGTTGTATTGTGCTAAATAATGACTACACCCTCTATTATATTTGCCCTATGCACACACTTTTTACCC

upper sequence: GRMZM2G020721_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT3G06550.2 (Arabidopsis thaliana), 3'ss of exon 7
-----------gtgcatctttacaccccactgttcctgattctctac-actagagtttttctaacatggtttcaccttcaacagATGATGTGGCGCCTCAATTTCTTTGTTATATTCTGCTGCATTGTCCTGAACAATGATTATACACTCTATTATATTTGTCCTATGCACACCCTTTTCACCC
           || |  |            | ||  ||  | ||  | ||| ||  ||  |||||||   |||    || ||||||||||||||| || |||||| | || ||||||| |||||| ||||| |||||   ||| |  || || || || || || |||||||| || || || |
gtaagagctatgtcctcccggcttttttcttatttttggctgtcacctacttgaaatt--ctaacata--ttcttggtctacagATGATGTGGCGGCTAAATTTCCTGGTCATATTCTCCTGCATCGTCCTCAACAACAGTTACATGCTATACTACATCTGCCCAATGCACACTCTGTTTACTC

upper sequence: GRMZM2G020721_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S5_239V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------gtgcatctttacacc--ccactgttc-ctgattctctacactagagttttt---ctaacatggtttcacc-ttcaacagATGATGTGGCGCCTCAATTTCTTTGTTATATTCTGCTGCATTGTCCTGAACAATGATTATACACTCTATTATATTTGTCCTATGCACACCCTTTTCACCC
                     ||| |       | |  ||| | ||   || ||||  | | | |   |  |   || ||  ||||  |   ||   |||||||||||||| ||||||||| | ||  | ||  |||||||||| ||||||||||| || |  ||||| || || ||||| |||||||| || ||||| |
ttcgcgatctgctttgagggtgtggaatcaagtatcgtccattcttagttgcttctggataatcggagtcatgcactgactgggttcgatgatttggcagATGATGTGGCGGCTCAATTTCCTGGTCTTCTTTAGCTGCATTGTACTGAACAATGACTACATGCTCTACTACATCTGTCCAATGCACACTCTCTTCACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgttcctgattctctacactagagtttttctaacatggtttcaccttcaacagATGATGTGGCGCCTCAATTTCTTTGTTATATTCTGCTGCATTGTCCTGAACAATGATTATACACTCTATTATATTTGTCCTATGCACACCCTTTTCACCC
                             ttctaac  putative branch site (score: 1)
                                        tttcaccttc  putative PPT
                          tttttctaa  TA-rich tract