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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTGCACAGGCTGCATCACTACTGTTATTAGGACCTTTTCTAGATTATTGGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctggataatgaaaaaatatttagggactacatcctttgtttctcttttgagataatgagtatatgcatatgtagatttacatgatacgtataa...

Basic information

species Glycine max
transcript GLYMA02G08700.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G08700.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 4
ACCTGCACAGGCTGCATCACTACTGTTATTAGGACCTTTTCTAGATTATTGGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctgga-taatgaaaaaatat----ttagggactacatcctttgtttctc---ttttgagataatgagtatatgcatatgtagatttacatgatacgtataa
 || || ||||||| ||| || || |||||||| || ||||| |||||||||||||||||||||||||||||||  ||  | || ||||| || || ||||||||| ||  |  |||  |  |  ||    ||     ||  ||    |  || |      |||    ||    ||| ||||| || |  | |||||| |        
CCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCTTTCTGGATTATTGGTTGACAAACAAAAGAGTTGACATGTACCAATATAACACAGCATCCTTGgtaagtactacagcaatccatgaccatcacttttatacctggatatgataatttttaaaccttggcccaactt-tatgtgcatgtggatttgtacatggtt-------
















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|58018262|gb|CX705004.1|CX705004
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|192315744|gb|FK011212.1|FK011212
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|192318484|gb|FK006604.1|FK006604
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|58017841|gb|CX704583.1|CX704583
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|192329850|gb|FK023354.1|FK023354
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|58021099|gb|CX707841.1|CX707841
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|10237393|gb|BE806281.1|BE806281
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|31473353|gb|CD415366.1|CD415366
EST:     GACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|192315745|gb|FK011213.1|FK011213
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|57575998|gb|CX548969.1|CX548969
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|58024695|gb|CX711436.1|CX711436
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACTTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|192318483|gb|FK006603.1|FK006603
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|58021414|gb|CX708155.1|CX708155
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA
EST: gi|14205435|gb|BG839113.1|BG839113
EST:     GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTG                         ATTTTCATATTCCTGTCATGCACTATTGCAATTGGCKCCAKCCTAAGCCAA
genomic: GGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctg ... gttttgacagATTTTCATATTCCTGTCATGCACTATTGCAATTGGCACCAACCTAAGCCAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCTGCACAGGCTGCATCACTACTGTTATTAGGACCTTTTCTAGATTATTGGTTGACAAACAAAAGAGTTGACAGATATGACTACAACACTGCCTCGTTGgtaagttctggataatgaaaaaatatttagggactacatcctttgtttctcttttgagataatgagtatatgcatatgtagatttacatgatacgtataa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaaaaa