Sequence
atgc intronic sequence ATGC exonic sequenceATATTTTTCGCCCTTTTGTTGGATATAGAGAAGTAAGGCTTGTGAGCAAAGAATCCAAACATgtaagtgtactgtttgcaacagttgtctgtttgccctcttttaacttggtttatcgtttcacactctttatgctgaaatacatgcttattgcag
Basic information
species | Glycine max |
transcript | GLYMA20G30540.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G30540.4 (Glycine max), 5'ss of exon 4
lower sequence: AT1G76940.1 (Arabidopsis thaliana), 5'ss of exon 4
ATATTTTTCGCCCTTTTGTTGGATATAGAGAAGTAAGGCTTGTGAGCAAAGAATCCAAACATgtaag--tgtactgtttgcaacagttgtctgttt------gccctcttttaacttggtttatcgtttc-acactctttatgctgaaatacatgcttattgcag-------
|||| ||||| |||||||| ||||| |||||||| || ||||||| |||||| |||||||||||||| | | | | ||| ||| | || | | ||| | || || | | | | | || | ||| |||| |
ATATATTTCGACCTTTTGTAGGATACAGAGAAGTGAGACTTGTGACCAAAGACTCCAAACATgtaagattttccctgcttcaaagtttggatattactgaaaatcgcttgttatagaaagtaattactttgataaacctgctaatgggtt-catatttatggggcaatgcag
upper sequence: GLYMA20G30540.4 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0166g00240.t01 (Vitis vinifera), 5'ss of exon 6
ATATTTTTCGCCCTTTTGTTGGATATAGAGAAGTAAGGCTTGTGAGCAAAGAATCCAAACATgtaagtgtactgtttgcaacagttgtctgtt-tgccctcttttaacttggt--ttatcgtttcacactctttatgctgaaatacatgct-tattgcag
||||||||||||| ||||| || |||| ||||||||| || ||||||||||||||||| ||||||||| ||| |||| | |||| | | | || || | || ||||| || | || || | ||| || | ||||||
ATATTTTTCGCCCATTTGTGGGGTATAAAGAAGTAAGACTCGTGAGCAAAGAATCCAAGCATgtaagttacttgtaataaacactccactgtcctaggcccacttggctagtcagttttcgttacatcactgtgattctcttcttcatactgttttgcagMapped 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|15201816|gb|BI425074.1|BI425074EST: CTTTTGTTGGATATAGAGAAGTAAGGCTTGTGAGCAAAGAATCCAAACAT CGTGGTGGAGATCCTCTAATCCTTTGTTTTGTGGATTTTGCAAATCCGGCC
genomic: CTTTTGTTGGATATAGAGAAGTAAGGCTTGTGAGCAAAGAATCCAAACATgtaagtgtac ... cttattgcagCGTGGTGGAGATCCTCTAATCCTTTGTTTTGTGGATTTTGCAAATCCGGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATTTTTCGCCCTTTTGTTGGATATAGAGAAGTAAGGCTTGTGAGCAAAGAATCCAAACATgtaagtgtactgtttgcaacagttgtctgtttgccctcttttaacttggtttatcgtttcacactctttatgctgaaatacatgcttattgcag
- - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - AAAGAA