Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatccctaccctactccctccgctgctgctcgacattgattgacatagcatcttaaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCTGCAATGAATGCAATCGGGTGTGGAATCACCCTGGTTGGTTGCACTTTCT

Basic information

species Zea mays
transcript GRMZM2G127591_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G127591_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g59550.1 (Oryza sativa), 3'ss of exon 5
---------gtaagatccctaccctactccctccgc---tgctgctcga-cattgattgacatagcatcttaaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCTGCAATGAATGCAATCGGGTGTGGAATCACCCTGGTTGGTTGCACTTTCT
          |  |  |  | |  |  ||  | |     | |||||||| ||||  ||   |  |    ||    || |||| || || || || || ||||| |||| |||||||||||| || |||||| | |||||||||||||| || |  ||||| || ||||| || ||||| |
gtagcaaccatttggcctatgctttgttcttttcatatattctgctcgatcatttcttagaactgatcattgcgctgcagGTTGCTGTTGCTGTATTGGTGTCATGGTTGATCTTCCGGAACCCTATCTCTCCTATGAATGCAATCGGATGCGCGATCACGCTCGTTGGCTGTACTTTTT

upper sequence: GRMZM2G127591_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g59550.2 (Oryza sativa), 3'ss of exon 4
------gtaagatccctaccctactccctccgc---tgctgctcga-cattgattgacatagcatcttaaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCTGCAATGAATGCAATCGGGTGTGGAATCACCCTGGTTGGTTGCACTTTCT
       |  |  |  | |  |  ||  | |     | |||||||| ||||  ||   |  |    ||    || |||| || || || || || ||||| |||| |||||||||||| || |||||| | |||||||||||||| || |  ||||| || ||||| || ||||| |
gcaaccatttggcctatgctttgttcttttcatatattctgctcgatcatttcttagaactgatcattgcgctgcagGTTGCTGTTGCTGTATTGGTGTCATGGTTGATCTTCCGGAACCCTATCTCTCCTATGAATGCAATCGGATGCGCGATCACGCTCGTTGGCTGTACTTTTT
















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|23357608|gb|BU645257.1|BU645257
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|31356104|gb|CD440461.1|CD440461
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|56462111|gb|CK986409.1|CK986409
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGCCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|149099201|gb|EE185229.2|EE185229
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|56382297|gb|CV984966.1|CV984966
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|32836907|gb|CD976585.1|CD976585
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|76289586|gb|DV029154.1|DV029154
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|148933713|gb|EC877623.2|EC877623
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|18172122|gb|BM347510.1|BM347510
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|148942797|gb|EC887826.2|EC887826
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|50328830|gb|CO523956.1|CO523956
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCACCCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|18166348|gb|BM336187.1|BM336187
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|8516658|gb|BE123383.1|BE123383
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|5468610|gb|AI834401.1|AI834401
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|211440739|gb|FL468427.1|FL468427
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTYT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|13149872|gb|BG320194.1|BG320194
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|4804034|gb|AI665900.1|AI665900
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|22520680|gb|BU079491.1|BU079491
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|60351094|gb|DN218067.1|DN218067
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|18169933|gb|BM339773.1|BM339773
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|18173393|gb|BM348781.1|BM348781
EST:     TCATCCATTCAGCAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|76909994|gb|DV163641.1|DV163641
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|24768736|gb|CA403865.1|CA403865
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|22542741|gb|BU093179.1|BU093179
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|211475641|gb|FL348857.1|FL348857
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|5124259|gb|AI745995.1|AI745995
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCCCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|211018876|gb|FL463754.1|FL463754
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|71773355|gb|DR971259.1|DR971259
EST:     GGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: GGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|17931203|gb|BM268163.1|BM268163
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
EST: gi|78024301|gb|DV492688.1|DV492688
EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctactccctccgctgctgctcgacattgattgacatagcatcttaaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCTGCAATGAATGCAATCGGGTGTGGAATCACCCTGGTTGGTTGCACTTTCT
                             gattgac  putative branch site (score: 3)
                                         atcttaaaat  TA-rich tract