Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtcgaacaatcggatcatcgtcagcgagtgttagttatccgagctagctaggtgacgaccccgcgctgacctcatcagctggcatggtgatcggtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGCCTAACCGGGCGGCCGGGACAGGGTA

Basic information

species Zea mays
transcript GRMZM2G123667_T05
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123667_T05 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g08210.1 (Oryza sativa), 3'ss of exon 1
gtacgtcgaacaatcggatcatcgtcagcgagtgttagtt-atccgagctagctaggtgacgaccccgcgctgacctcatcagctggcatggtgatcggtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGCCTAACCGGGCGGCCGGGACAGGGTA
                  | | |   ||| |  |    |  |  |||       |  |      |     |  |    || |  |||     ||     | |||||||||| |||| | || |||||||||||||||||||||||||||||||| ||||| ||||||||||| ||     |||| ||| ||||||| ||||| |||||
-----------------gtaagcaagagcaaaagcagatcgaatcgaatcgaggaaattgaagtcgaattcaaattcaattaattggggatttgg--aattgttgcagAGAGGGCGATGGGAGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGGGACCGGAAGTACCCGAACGGGCAGCGGCCGAACAGGGCGGCGGGGACGGGGTA

upper sequence: GRMZM2G123667_T05 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA04G42800.1 (Glycine max), 3'ss of exon 1
gtacgtcgaacaatcggatcatcgtcagcgagtgttagttatccgagctagctaggtgacgaccccgcgctgacctcatcagctggcatggtgatcggtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGCCTAACCGGGCGGCCGGGACAGGGTA
                       || |     | ||     || ||  ||      |    |   |    |    ||||    ||  || || || |     | |||    ||| | |   || ||||| |||||||||||||| || || || ||||| || |||||||| || |||||||| ||||||||||| || || || ||
-----------------------gtaacattatcttcaacttctgatatattcttattcttaattcttaattcattcattttttga-attgttattg-----tacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACCGGAAATACCCGAACGGTTCCAGGCCGAACCGGGCGGCGGGAACCGGTTA

upper sequence: GRMZM2G123667_T05 (Zea mays), 3'ss of exon 1
lower sequence: Vv07s0031g02610.t01 (Vitis vinifera), 3'ss of exon 1
gtacgtcgaacaatcggatcatcgtcagcgagtgttagttatccgagctagctaggtgacgaccccgcg-ctgacctcatcagctggcatggtgatcggtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGCCTAACCGGGCGGCCGGGACAGGGTA
  |  |   ||||    || ||||  |     ||| | |  ||    |||| |  |  |     | |   ||||  |       |    |||   | |||   |||||  | |||  |    || || |||||||||||||||||||| ||  | |||||||| || || || || || ||||||||||||||||||||  | || ||
-aatttttgacaaat--atgatcgaaact--ctgtaaatcgtctct-ctagttcagcaaattttcagaaactgaatttggatatt--tttggaattgggtttctgcagGAATGGCTCTGTACGGTGAAAAGGAGTGGTACTTCTTCTCTCCAAGGGACCGCAAATATCCCAACGGTTCAAGGCCTAACCGGGCGGCCGGATCCGGCTA

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|211322211|gb|FL322860.1|FL322860
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|38687829|gb|CK144860.1|CK144860
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211075262|gb|FL326781.1|FL326781
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211331126|gb|FL341576.1|FL341576
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211518019|gb|FL144160.1|FL144160
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211165931|gb|FL144172.1|FL144172
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211165934|gb|FL144175.1|FL144175
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGAGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|17921555|gb|BM259206.1|BM259206
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211165936|gb|FL144177.1|FL144177
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|17921883|gb|BM259534.1|BM259534
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211145460|gb|FL359539.1|FL359539
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAAGAAGGAGTGGTACTTCTTCTCGCCGCGCGAC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGA-GAAGGAGTGGTACTTCTTCTCGCCGCGCGAC
EST: gi|211449319|gb|FL365458.1|FL365458
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211518024|gb|FL144165.1|FL144165
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211329589|gb|FL022638.1|FL022638
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|19351281|gb|BM895813.1|BM895813
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211127219|gb|FL366470.1|FL366470
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211165928|gb|FL144169.1|FL144169
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAAAAAAGGAGTGGTACTTCTTCTCGCCGCGCGA
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAA--GGAGTGGTACTTCTTCTCGCCGCGCGA
EST: gi|89756736|gb|DY686654.1|DY686654
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|211285411|gb|FL349550.1|FL349550
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
EST: gi|88756318|gb|DY540459.1|DY540459
EST:     GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAG                         AGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC
genomic: GGTCATCGCCGAGGTGGATCTCTACAAGTTCGACCCATGGCAGCTCCCAGgtacgtcgaa ... gtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggtgacgaccccgcgctgacctcatcagctggcatggtgatcggtggttgcagAGAAGGCGTTCGGTGGGGAGAAGGAGTGGTACTTCTTCTCGCCGCGCGACCGCAAGTACCCGAATGGCTCCAGGCCTAACCGGGCGGCCGGGACAGGGTA
               cgctgac  putative branch site (score: 3)