Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacttttttgtgcctaaaatatgtttaaaataattgcttcaaaaaaagatatgaaatttgtaccatgaccgaagcttacatttatatgcttggttgattcttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG

Basic information

species Glycine max
transcript GLYMA10G36940.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36940.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 1
gtaagacttttttgtgcctaaaatatgtttaaaataattgcttcaaaaaaagatatgaaatttgtaccatgaccgaagcttacatttatatgctt---ggttgattcttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG
                | ||||    |  | |  |  ||| |  ||| |||||  |     || ||    |   |  |||   ||| |  |  ||   | ||| || ||||| |||||| |||| | |||||||| |||| ||||| ||||| ||||| ||||| || ||  |||| |||||||| |||||| ||||||||||||
----------------cttaaa----ggctcatgtgtttgttgaaaagaaagaatttcccattatattggggatgg-gctatgattgacctagttctggtttgtttgttgtttacagccagGGCCTCGGGATGGAACCATTCAGTGCTTCATTAAGAGGGACAAGTCCAACTTGACTTACCACCTTTTCCTTTGCCTTAGCCCTG
















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|192294080|gb|FG986169.1|FG986169
EST:     GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAG                         CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
genomic: GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAGgtaagacttt ... ttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
EST: gi|209725896|gb|BW654733.1|BW654733
EST:     CAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTNGAA-CAG                         CCTGNGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATC
genomic: CAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTT-GAAACAGgtaagacttt ... ttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATC
EST: gi|6719177|gb|AW306824.1|AW306824
EST:     GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAG                         CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
genomic: GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAGgtaagacttt ... ttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
EST: gi|192301224|gb|FG988989.1|FG988989
EST:     GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCCTGAAACAG                         CCTGGACATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
genomic: GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAGgtaagacttt ... ttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
EST: gi|254323676|gb|GR840317.1|GR840317
EST:     GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAG                         CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
genomic: GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAGgtaagacttt ... ttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
EST: gi|213602197|gb|DB962690.1|DB962690
EST:     GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAG                         CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
genomic: GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAGgtaagacttt ... ttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
EST: gi|23725761|gb|BU760845.1|BU760845
EST:     GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAG                         CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT
genomic: GCAGTCCTGAATTCTGTGGGAAGATTACTTTCCCTGTTTCCTTGAAACAGgtaagacttt ... ttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtaccatgaccgaagcttacatttatatgcttggttgattcttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG
                                          ttcttgttc  CT-rich tract
                    ttacatttatat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagacttttttgtgcctaaaatatgtttaaaataattgcttcaaaaaaagatatgaaatttgtaccatgaccgaagcttacatttatatgcttggttgattcttgttcacagCCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA