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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaatttatctgttttcaattccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG

Basic information

species Glycine max
transcript GLYMA03G04500.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 8
gtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaatttatctgttttcaattccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
         ||       |||||  |||||  |||       ||   |  | |  |   | | ||||  |  | |  | |||  ||||||| |||||||| || || |||||||| |||||||| |||||||| ||||||||||| |||  ||| || ||
--------gttagcagcctttccttttgtatattctt---gattgcctattcctttttgtatgtctgaatatactgtc-tttatagGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACGGAGTTCAGAAAAGTCCAGCAGTG

upper sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G149238_T02 (Zea mays), 3'ss of exon 8
gtaaaaattttgcttatatttccccttgtaatt-tccctccatttttttggttcactgaatttatctgttttcaattccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
     | || |  ||   |   |     ||||  | || |  |||  ||   |   |   |   |   |  || |||   |||  |||||||||| ||||| ||||||||||| |||||||| |||||||||||  | |||||  | |||   || |||||
--gtcagttgtcatttcttgcacatgcttaataataccgctgtttgcttcactttttccttcatttcatactccatt--gtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTGCTGGCAGAGTTTCGAAAAGTTCAGCAATG

upper sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G149238_T03 (Zea mays), 3'ss of exon 7
gtaaaaattttgcttatatttccccttgtaatt-tccctccatttttttggttcactgaatttatctgttttcaattccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG--------------------------
     | || |  ||   |   |     ||||  | || |  |||  ||   |   |   |   |   |  || |||   |||  |||||||||| ||||| ||||||||||| |||||||| |||||||||||  | |||||  | |||   || |||||                          
--gtcagttgtcatttcttgcacatgcttaataataccgctgtttgcttcactttttccttcatttcatactccatt--gtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTGCTGGCAGAGTTTCGAAAAGTTCAGCAATGGTATGTAGTTCTTTTTTATCATGTTT

upper sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G161418_T06 (Zea mays), 3'ss of exon 6
gtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaatttatctgtt---ttca-attccattttc---agGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
        || |     |||||  |||| |  | |     | |       ||  ||    || ||  ||   |||| | |||||| |    |||||||||| ||||| ||||||||||| |||||||| |||||||| ||  | ||||| || ||||  || |||||
-------gttagtcgtcatttcttcttgcacatgcttaataataccgccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG

upper sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------gtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaattt-atctgttttcaattccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
                       |    |||| |     | || ||  ||| | |||   |   |  |    | ||||| ||||  |  | ||||   | |||  ||||||||||||||||||| || || || ||||| |||||||| ||||| ||||| |||||| |||| |||||||||||
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG

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|31461676|gb|CD403704.1|CD403704
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|27445915|gb|CA953038.1|CA953038
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|254322493|gb|GR837907.1|GR837907
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|193372010|gb|FK334625.1|FK334625
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|193447546|gb|FK415071.1|FK415071
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCCGTGCTT
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTT
EST: gi|208110383|gb|GD911811.1|GD911811
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|193362081|gb|FK326487.1|FK326487
EST:     TATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|208049718|gb|GD847081.1|GD847081
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|31455890|gb|CD397918.1|CD397918
EST:     TAGTCTTGCTTATATTTGTCTCTGGATAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
EST: gi|254316348|gb|GR827885.1|GR827885
EST:     CTGG-AAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACCACTGCCTTTGAAAACATATATCCTGTGCTTAC
genomic: CTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTA-CACTGCCTTTGAAAACATATATCCTGTGCTTAC
EST: gi|208120323|gb|GD915568.1|GD915568
EST:     TAGTTTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCC
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCC
EST: gi|208025200|gb|GD823864.1|GD823864
EST:     TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAG                         GTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG
genomic: TAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattt ... ccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccctccatttttttggttcactgaatttatctgttttcaattccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
                                           ttccattttc  CT-rich tract
                          aatttatctgtttt  TA-rich tract