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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaattcctggtgctgagtgcttggctgcaaacaatcttgaatgtgataaattttacccccttgttctttcag

Basic information

species Oryza sativa
transcript LOC_Os01g59440.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g59440.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G815009_T01 (Zea mays), 5'ss of exon 4
GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagta-----caattcctggtgctgagtgcttgg----ctgcaaac-aatcttgaatgtgataaattttacccccttgttctttcag
|||||||||||||||||  ||||||||||| ||||||||||||||  | |||||||||||||| |||||||||||||||     ||||| |   || | ||   |       || || |  | |  | ||| ||| || | |  || ||||| ||||||||
GCGGCTCAATGGCAATCATTTGACTGGGCCGATCCCAAGGGAACTTTCTGGAATATCTAGTCTCAAAGTTGTgtaagtaaatatcaatttcaaatgtttagcattctattctctccagattagtgctcaatttgacaa-tctacccaccttgctctttcag

upper sequence: LOC_Os01g59440.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G121820_T01 (Zea mays), 5'ss of exon 4
GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaattc-----ctggtgctgagtgcttggctg----caaac-aatcttgaatgtgataaattttacccccttgttctttcag
||| |||||||||||||  ||||||||||| |||||||||||||| || |||||||||||||| |||||||||| ||||||  ||     |   || | ||   |    |     || || |||  | ||| | | || | |  || |||| || ||||||
GCGTCTCAATGGCAATCATTTGACTGGGCCCATCCCAAGGGAACTCGCTGGAATATCTAGTCTCAAAGTTGTgtgagtacacgtcagcctcaaatgtttagaattctattctttccacactaatactcaattttacaa-tctacccaccttattatttcag
















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|2317317|gb|C22371.1|C22371
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGGCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTTACATCAGGGACCA
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCT-ACATCAGG-ACCA
EST: gi|88241413|gb|CI241262.1|CI241262
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|66916421|gb|CX103269.1|CX103269
EST:     ACTGTGCCAATCCCAATGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTATGTGGAACAATTCCTACATCATGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|29642936|gb|CB647943.1|CB647943
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|87018477|gb|CI252231.1|CI252231
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|55440912|gb|CV733769.1|CV733769
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|87034659|gb|CI189283.1|CI189283
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86424519|gb|CI063280.1|CI063280
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|87036087|gb|CI189534.1|CI189534
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCGGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|3767181|gb|AU031291.1|AU031291
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|27577115|gb|CA999809.1|CA999809
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|58593542|gb|CF991850.1|CF991850
EST:     CTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAAGTTCCTACATCAGGACCAT
genomic: CTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAA-TTCCTACATCAGGACCAT
EST: gi|86424442|gb|CI063203.1|CI063203
EST:     GGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: GGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88515042|gb|CI442696.1|CI442696
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88239634|gb|CI238796.1|CI238796
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88442492|gb|CI544059.1|CI544059
EST:     GGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: GGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86492888|gb|CI135521.1|CI135521
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88381449|gb|CI528429.1|CI528429
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86424517|gb|CI063278.1|CI063278
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88413978|gb|CI530950.1|CI530950
EST:     CTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: CTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|89163681|gb|CI100571.1|CI100571
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|157652581|gb|EX452215.1|EX452215
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86545317|gb|CI185523.1|CI185523
EST:     CCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: CCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|8856670|gb|AU093988.1|AU093988
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|11173068|gb|AU164597.1|AU164597
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|11442641|gb|BF430544.1|BF430544
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|24468891|gb|CA305840.1|CA305840
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTATGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86253994|gb|CI058721.1|CI058721
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|3548933|gb|AF074734.1|AF074734
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86434587|gb|CI105820.1|CI105820
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86252357|gb|CI056094.1|CI056094
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88199587|gb|CI199437.1|CI199437
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88471532|gb|CI408803.1|CI408803
EST:     GGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: GGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86826587|gb|CI364158.1|CI364158
EST:     ATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTCTGGAACAATTCCTACATCAGGACCATT
genomic: ATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|55409093|gb|CV721469.1|CV721469
EST:     CCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: CCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|218479908|gb|FG956823.1|FG956823
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTATGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88245833|gb|CI245682.1|CI245682
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|86419874|gb|CI054675.1|CI054675
EST:     ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: ACTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88477444|gb|CI414715.1|CI414715
EST:     CCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: CCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
EST: gi|88520127|gb|CI447781.1|CI447781
EST:     AGTCTTAAAGTTGT                         TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT
genomic: AGTCTTAAAGTTGTgtaagtacaa ... gttctttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATT