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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgtgaattttaaacgtgtgatggattttattatgcacctttggtttttgtatgtcactagttagtgaaattagctgtttgttgacttacatgattgatttccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA

Basic information

species Glycine max
transcript GLYMA04G39520.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39520.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtgtgaattttaaacgtgtgatggattttattatgcacctttggtttttgtatgtcactagttagtgaaattagctgtttgttgacttacat-gattgatttccttaac---agGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA
              ||| | | |  |    | || | | || |||| |    || |  ||  |  ||| | |  |||   |||| |  |  | ||| |||||   |  | ||    ||||||| || |||||||| ||||| |||||||||||||| || |||||||||||||||
-------------gtaagcttttctt--cctctactttccaactttcg----tggaaatcgttttttatttatttta-tagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA

upper sequence: GLYMA04G39520.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G09900.2 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtgtgaattttaaacgtgtgatggattttattatgcacctttggtttttgtatgtcactagttagtgaaattagctgtttgttgacttacatgattgatt---tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA
                             |   ||| ||  | ||||| | ||  || ||      | |  |  ||      ||||| ||       |||   |   |  |||||||||||| || |||||||| ||||| |||||||||||||| ||||| || |||||||||
----------------------------gtaagattttgtgcatttggctattaaatctc-----ctggaaattttcttcccttgttaacccctgcaatttgataaataattaacagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAA

upper sequence: GLYMA04G39520.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 4
gtcagtgtgaattttaaacgtgtgatggattttattatgcacctttggtttttgtatgtcactagttagtgaaattagctgtttgttg-acttaca---tgattgat-ttccttaa---cagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA
||||||   || |  | |  |   ||||  ||| |     |  |||||| || | |   |||||          ||   | | | ||  ||   ||   || ||||| || |||||   ||||||||||| |||||||| ||||| |||||||| ||||| ||||||||||||||||||
gtcagttaaaaat--agagttaccatgggcttttt-----atttttggtattag-aaaacactaaccccgttgtttgtttttatattacacgagcactttggttgatgttacttaatcacagGTGGAAACATTTGGTGCAATGGCAAAAACTGAAAAAATTGCATTCATTCTTGAACAA

upper sequence: GLYMA04G39520.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S257_89V6.2 (Physcomitrella patens), 3'ss of exon 4
--------------------------gtcagtgtgaatttta--aacgtgtgatgg--attttattatgcac-ctttggtttttgtatgt--cactagttagtgaaattagctgtttg----ttgacttacatgattgatttccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA
                           ||| |   |   |||  ||| ||| |||   ||  | |     ||  ||||||  |  ||     |||  | | ||| | ||   | || |     ||| |   ||    | |||  |   |||||||||||||||||||||||||| ||||||||||| || || |||||||||||||||
gtatgtgatattgcttcgtgctgttgatcaattcaacggttagtaacatgtaatgttcatggtgtggaagacattttggtgctactagagtgcacagggtggtgta-ttgaatattggagccctgattcgtatcggcg-tttggtcttcagGTGGAAACTTTTGGTGCCATGGCAAAAACTGAGAAGATTGCTTTCATTCTTGAACAA

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|208233022|gb|GE032775.1|GE032775
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|193674954|gb|FK616072.1|FK616072
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGG
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGG
EST: gi|193411717|gb|FK381652.1|FK381652
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTTGAGAAAATCGCATTCATTCT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAAC-TGAGAAAATCGCATTCATTCT
EST: gi|193430352|gb|FK397288.1|FK397288
EST:     AGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCT
genomic: AGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAA-TTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCT
EST: gi|20812745|gb|BQ297231.1|BQ297231
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|207771711|gb|GD742486.1|GD742486
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAAGAAAATCGCAT-CATTCT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGA-GAAAATCGCATTCATTCT
EST: gi|208080953|gb|GD873823.1|GD873823
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAA
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAA
EST: gi|193702744|gb|FK639176.1|FK639176
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|15284713|gb|BI468604.1|BI468604
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|193364691|gb|FK330120.1|FK330120
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|193530760|gb|FK484523.1|FK484523
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|193328951|gb|FK295195.1|FK295195
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|193426023|gb|FK390800.1|FK390800
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|192297411|gb|FG990689.1|FG990689
EST:     AAGGACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|193627757|gb|FK577939.1|FK577939
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTC
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|208038643|gb|GD834543.1|GD834543
EST:     TGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: TGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|207725740|gb|GD700972.1|GD700972
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|7478560|gb|AW666314.1|AW666314
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|193412299|gb|FK381226.1|FK381226
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
EST: gi|11274759|gb|BF325094.1|BF325094
EST:     AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT
genomic: AAGAACAAGGACTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... tccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactagttagtgaaattagctgtttgttgacttacatgattgatttccttaacagGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA
                                           tttcctt  CT-rich tract
          tgaaatta  TA-rich tract