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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACTATGGGGCACCAGCACCAACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgccttttcatgttgaagttaccattttcttgattctgcatgacaaaacagataggttaatactgcatctttctttgactgttttatcaggtt...

Basic information

species Oryza sativa
transcript LOC_Os08g31470.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g31470.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G078541_T01 (Zea mays), 5'ss of exon 4
TTACTATGGGGCACCAGCACCAACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgccttttcatgttgaagttaccattttcttgattctgcatgacaaaacagataggttaatactgcatctttctttgac-tgttttatcaggtt-
||| ||||| |||||||| ||||| |||||||||||| | ||||| ||||||||||||||  |||||||||| || ||   | | ||||| ||||||||||| | |||   || |  | || | | | | || || || |  |||| | |  |       |  ||  |  |   || |    |||| || |||   |   | 
TTATTATGGTGCACCAGCCCCAACACCAAAGGAACAACTTTATGATGAGCTTGTTGATGGATTGCGTGGTAGCGACCCTATTGTAGGCTCAGGTTCACAGgtaacattcttttgttctctt-atgctgc-atcttgtttagactgcttcattacttgaccactttccttttttttcatcaaatgacatgctttgctatagtc

upper sequence: LOC_Os08g31470.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G150212_T03 (Zea mays), 5'ss of exon 5
TTACTATGGGGCACCAGCACCAACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgccttttcatgttgaagttaccattttcttgatt-ctgcatgacaaaac-agataggttaatactgcatctttctttgactgttttatcaggtt
||| ||||| |||||||| ||||| || ||||||||| | ||||| ||||||||||||||  |||||||||| || ||   ||| ||||| ||||||||||| |  ||   || |  | ||    |     || | | || | || ||| ||   || |  |   ||  |  || |   | |       | |  |  |  ||
TTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTGATGGATTGCGTGGTAGCGACCCTAGTATAGGCTCAGGTTCACAGgtgactttcttttgttctcttatgctgcatcttgtttggactgcttcattacttgaccacctttctttttgttgaagtataca--agtggatagactacctt

upper sequence: LOC_Os08g31470.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv01s0011g01870.t01 (Vitis vinifera), 5'ss of exon 4
TTACTATGGGGCACCAGCACCAACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgccttttcatgttgaagttaccattttct-tgattctgcatgacaaaacagataggtta---atactgcatctttctttgactgttttatcaggtt
||||||||| ||||| |||||||| || || ||||||||||||   || ||||| |||||  |||| || ||||||||||  || || |||||||| ||||| || |||  | |  ||    || ||  | | |    ||||   | | |     |   ||| || |   ||||  ||| | |||| ||      ||   |   
TTACTATGGTGCACCTGCACCAACACCCAAAGAACAATTGTATACTGAACTTGTCGATGGCTTGCGAGGAAGTGATCCATGCATTGGTTCTGGTTCCCAGgt-atcttgtttctctattgccaacttgacttgtgaaatgatggggaaagtgctgatttatatgtaacaaatacatcatgtatcttggatgcaagtaatgg---

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|58656568|gb|CK045248.1|CK045248
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|58662040|gb|CK050720.1|CK050720
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|58609731|gb|CK037764.1|CK037764
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|58657265|gb|CK045945.1|CK045945
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|29616426|gb|CB621438.1|CB621438
EST:     TTGTTGATGGGCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|58659505|gb|CK048185.1|CK048185
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|29616112|gb|CB621124.1|CB621124
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|58602503|gb|CK013031.1|CK013031
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
EST: gi|58660549|gb|CK049229.1|CK049229
EST:     TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAG                         GTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA
genomic: TTGTTGATGGTCTGCGTGGTAGTGATCCATCTATCGGCTCTGGTTCACAGgttatattgc ... taatcttcagGTAGCTAGCCTTGAAACATATGGTACATTGGGTGCCATTGTGAAGAGTCGA