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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttccatatatgatcatttttcactcacactaaacatgggagtttagatgaaaactctaatgctgtcgttgtccttactgaatctgtgaaatttgttttcctggcttgttggttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGTGCTCGCCCGTAGACCTAGATCGCGTAGGGGATGGTTCGTTCGTTCGATC

Basic information

species Oryza sativa
transcript LOC_Os02g08520.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g08520.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G117544_T01 (Zea mays), 3'ss of exon 6
gtaagttccatatatgatcatttttcactcacactaaacatgggagtttagatgaaaactc-taatgctgtcgttgtccttactgaatctgtgaaatttgttttcctggcttgttggttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGA-GTGCTCGCCCGTAGACCTAGATCGCGTAGGGGATGGTTCGTTCGTTCGATC-
             |  ||  |  | || |   |  | |   ||    |   |||     |  ||| |   || |||   |||   |   |   | | || |||||||||           |||||| || | ||| || || |||||||||||| | |||||||||||||||||| | |  |  || |  |  ||  |       | ||| |||  ||| ||||  | 
------------gaaaatgctaatccaatgcaaaaacagggggctactcttatgtggttttataaggtcttctttgcttttatcaa---taacagacttattttcctgg-----------atgcagCACACACACTGAAGTGCAGGAGAGAGTGCTGAAGGGAAGGATGGACTGATGAGTGCTGCCATGTAGTTA--TTCTAGGAGAGATTGTTTCTTCATTCGCCCT
















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|88545455|gb|CI475017.1|CI475017
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|88488981|gb|CI426252.1|CI426252
EST:     TCTNTTGATCGAGATGGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|24208750|gb|AU225777.1|AU225777
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|86899863|gb|CI300033.1|CI300033
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|5003116|gb|AU068225.1|AU068225
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|27921152|gb|CB096960.1|CB096960
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|88543734|gb|CI473768.1|CI473768
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|88555319|gb|CI485568.1|CI485568
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGANTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|88511305|gb|CI438811.1|CI438811
EST:     TCTGTTGATCGAGATTTCGTGAGTGGCTGGGGTGGTTATGTTCTCCTTNT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|88535175|gb|CI463959.1|CI463959
EST:     TCTNTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
EST: gi|88509136|gb|CI436642.1|CI436642
EST:     TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGT                         GACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT
genomic: TCTGTTGATCGAGATTGCCTGAGTGGCTGGGGTGGTTATGTTCTCCTTGTgtaagttcca ... gttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttgtccttactgaatctgtgaaatttgttttcctggcttgttggttaatgcagGACTCCCACAGAGGTTCAGGAGAGAGTGATCAAGGGAAGGATGGACTGAGTGCTCGCCCGTAGACCTAGATCGCGTAGGGGATGGTTCGTTCGTTCGATC
                      aaatttgtttt  TA-rich tract