Sequence
atgc intronic sequence ATGC exonic sequenceATATCTGGTGAAACAGTAGGTGAAGTGAGGATTGTTTCAGATATGCACGAGCGTAAGGCTGCAATGGCACAAGAAGCTGATGCATTTGTTGCTCTCCCTGgtagtaacctcaacatctctcaaataattttaaaaaataattgttgattacatgtcttatacatgtgaatgccactaaaattgttcttaattgtacggaaatttgtttgtattcttggtgttttggattgttgttgtattgattatgtactatatggactctcactgtccttattatgcccccccttataattag
Basic information
species | Glycine max |
transcript | GLYMA04G05550.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G26140.1 (Arabidopsis thaliana), 5'ss of exon 2
ATATCTGGTGAAACAGTAGGTGAAGTGAGGATTGTTTCAGATATGCACGAGCGTAAGGCTGCAATGGCACAAGAAGCTGATGCATTTGTTGCTCTCCCTGgt-agtaacct----caacatctctcaaataattttaaaaaataattgttgattaca-tgtcttatacatgt-gaatgccactaaaattgttcttaattgtacggaaatttgtttgtattcttggtgttttggattgttgttgtattgattatgtactatatggactctcactgtccttattatgcccccccttataattag
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----CTGGTGAGACTGTTGGAGAGGTAAGAATTGTTTCAGACATGCACGAGCGCAAAGCTACAATGGCTCAAGAAGCTGGGGCTTTCATTGCGCTCCTAGGCGAgttttcttattcaaaatttctagcaagttttgaaagtttgcaaaatgatgatggcttcttaaggttgtaggaaaatggtaggaaaagtctatttcctacgaaattc---ctacgattttggccttaggaaaaatgg--gtgtttcttgtatttcatcag---------------------------------------
upper sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 4
ATATCTGGTGAAACAGTAGGTGAAGTGAGGATTGTTTCAGATATGCACGAGCGTAAGGCTGCAATGGCACAAGAAGCTGATGCATTTGTTGCTCTCCCTGgtagtaacctcaacatctctcaaataattttaaaaaataattgttga--ttacatgtcttatacatgtgaatgccactaaaattgttcttaattgtacggaaatttgtttgtattcttggtgttttggattgttgttgtattgattatgtactatatggactctcactgtccttattatgcccccccttataattag
||||||||||| || || || || || || ||||| |||| ||||| ||||| ||||||||||||||||| |||||||| || || |||| ||||||||| || ||| | || | | | | |||||||| | || | || || | | || | || | | |
ATATCTGGTGAGACTGTGGGAGATGTAAGAGTTGTTGCAGACATGCATGAGCGAAAGGCTGCAATGGCACAGGAAGCTGAGGCCTTCATTGCACTCCCTGgtgagaa----aacgctttaaaactgaatcctagc--taattgttaaagttgaaagttttg---gtatcaaaaactacggggttttgttcag---------------------------------------------------------------------------------------------------------
upper sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0008g01040.t01 (Vitis vinifera), 5'ss of exon 4
ATATCTGGTGAAACAGTAGGTGAAGTGAGGATTGTTTCAGATATGCACGAGCGTAAGGCTGCAATGGCACAAGAAGCTGATGCATTTGTTGCTCTCCCTGgtagtaacctca-acatctctcaaataattttaaaaaataattgttgattacatgtcttatacatgtgaatgccactaaaattgttcttaattgtacggaaatttgtttgtattcttggtgttttggattgttgttgtattgattatgtactatatggactctcactgtccttattatgcccccccttataattag
|||||||| |||| || || ||||| || ||||| || || ||||| ||||| || |||| |||||| |||||||||||||| ||| ||||||| ||||||| |||| |||| ||| | | ||| | || || ||| | | ||||| | || | | | ||| |||||| | |
ATATCTGGCCAAACTGTTGGAGAAGTAAGAATTGTGTCGGACATGCATGAGCGGAAAGCTGAAATGGCTCAAGAAGCTGATGCTTTTATTGCTCTTCCTGgtaactaccttggacatt------atattccttaaagacaaaagtagatcatcttctatatactca-ggatactattgtttgagtttcaaattgt-tgtag-----------------------------------------------------------------------------------------------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|209721045|gb|BW666302.1|BW666302EST: GCGTAAGGCTGCAATGGCACAAGAAGCTGATGCATTTGTTGCTCTCCCTG GAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAAC
genomic: GCGTAAGGCTGCAATGGCACAAGAAGCTGATGCATTTGTTGCTCTCCCTGgtagtaacct ... ttataattagGAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATCTGGTGAAACAGTAGGTGAAGTGAGGATTGTTTCAGATATGCACGAGCGTAAGGCTGCAATGGCACAAGAAGCTGATGCATTTGTTGCTCTCCCTGgtagtaacctcaacatctctcaaataattttaaaaaataattgttgattacatgtcttatacatgtgaatgccactaaaattgttcttaattgtacggaaatttgtttgtattcttggtgttttggattgttgttgtattgattatgtactatatggactctcactgtccttattatgcccccccttataattag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT