Sequence
atgc intronic sequence ATGC exonic sequenceAGAGAAGAAAGTCATTATTATCCATCGACTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAGgtgggattatagcgccctaacttgaccacttactcatactctggtttctaaatgcttatattaatgcttcattgcag
Basic information
species | Glycine max |
transcript | GLYMA16G03950.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G03950.1 (Glycine max), 5'ss of exon 10
lower sequence: AT2G46020.1 (Arabidopsis thaliana), 5'ss of exon 10
AGAGAAGAAAGTCATTATTATCCATCGACTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAGgtgggattatagcgccctaacttgaccacttactcatactctggtttctaaatgcttatattaatgcttcattgcag
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TGAAAAAAAGGTCATAGTCATTCACAGACTTCATCAAATTTTAGAGCCATTCATGCTCAGACGCCGTGTTGAGGATGTGGAAGGGTCACTTCCTGCTAAGgtaggatc-tatc-ttatatttttgctg-ttattttccgtctagatatttcct-ctgattatgcttttgggttgcag
upper sequence: GLYMA16G03950.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv15s0046g02290.t01 (Vitis vinifera), 5'ss of exon 10
AGAGAAGAAAGTCATTATTATCCATCGACTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAGgtggg-attatagcgccctaacttgaccacttactcat-actctggtttctaaatgcttatattaatgcttcattgcag
|| ||||| || || ||||| || ||||||||||| ||||| ||||||||||||||||| || |||||||||||||| ||||| ||||||||||||||||| | || | | | | | || | ||| || ||| | | ||| | |||||||
TGAAAAGAAGGTGATCATTATTCACCGACTTCATCAAATTCTGGAGCCTTTCATGCTCAGACGCCGTGTTGAAGATGTGGAAGGTTCACTTCCTCCTAAGgtatgtgttgttagtctttggtggtgaagccctttgatgaggctgattctctaatacaaacattga------attgcag
upper sequence: GLYMA16G03950.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S158_37V6.1 (Physcomitrella patens), 5'ss of exon 12
AGAGAAGAAAGTCATTATTATCCATCGACTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAGgtgggattatagcgccctaacttgaccacttactcatactctggtttctaaatgcttatattaatgcttcattgcag------------------------------------------------------------------------------------------------
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TGAGAAGAAGGTTATTGTTATTCACAGGCTTCATCAGATTCTTGAGCCTTTCATGTTGCGGCGTCGTGTTGAGGATGTGGAAGGATCTCTTCCTCCGAAGgtggtacctt-gtttattaac--aatta-tagtgcaaaaaatgaattccgactgtcagttcttgtcatccattcatgtttagtctggttttaatttatttataatattggctatcagtgaacaacgtattcttcgaagaggatcctcacgcgaatgggatgctggttttacag
upper sequence: GLYMA16G03950.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S25_252V6.1 (Physcomitrella patens), 5'ss of exon 12
AGAGAAGAAAGTCATTATTATCCATCGACTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAGgtgggattatagcgccctaacttgaccactt--actcatactctg-----gtttctaaatgct-tatattaatgcttca--ttgcag-----------------------------------------------------------------
||||| ||||||||| |||| ||| | || || |||||||| || ||||||||| | ||||||||||||| ||||| ||||| || |||||||| |||||| | | | | | ||| | | | | | | |||| | || | | | | || | | | || |||| || ||
TGAGAAAAAAGTCATTGTTATTCATAGGCTCCACCAGATTCTCGAACCTTTCATGTTGCGGCGTCGTGTTGAGGATGTAGAAGGATCTCTTCCTCCCAAGgtgataattt-gttcactatcgttaatagtgcaattcatgttttgtgatcatcttttgacgccatccagtcatctttcaatttttagattatatgccacaaattcatctttaggacgatatccttatttcaatttttatcctggttccacagMapped 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|4314018|gb|AI461137.1|AI461137EST: TCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAG GTCAGCATAGTTCTGAAATGTAAAATGTCAGCTGTCCAGAGTGCCATTTAT
genomic: TCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAGgtgggattat ... ttcattgcagGTCAGCATAGTTCTGAAATGTAAAATGTCAGCTGTCCAGAGTGCCATTTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGAAGAAAGTCATTATTATCCATCGACTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAAGGCTCACTTCCTCCTAAGgtgggattatagcgccctaacttgaccacttactcatactctggtttctaaatgcttatattaatgcttcattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG