Sequence
atgc intronic sequence ATGC exonic sequenceTCACTTGAGACGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgtttgtgtgtaccttttttgttttaacgtgtttgcggactgttgactctgttgtgatgttttgtgtgtgtattgaaatagaaagtgaacgtttttgtttag
Basic information
species | Glycine max |
transcript | GLYMA02G03750.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G553314_T01 (Zea mays), 5'ss of exon 3
TCACTTGAGACGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgtttgtgtgtaccttttttgttttaacgtgtttgcggactgttgactctgttgtgat-gttttgtgtgtgtattgaaatagaaagtgaa-cgtttttgtttag---------
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TCTATTGAGAGAGCATATGGATGCAAGCTGTGTATTGGGCCTTGCACCACAAGAGGGGAGgtatgaaaatgatataaagatc---accagcttaaagcttaatgaattttgtgtaaccatcttctgtgt-tgttgagctgttttctaaagtgtttccacttaacatcctaag
upper sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv19s0015g00470.t01 (Vitis vinifera), 5'ss of exon 3
TCACTTGAGACGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgtttgt-gtgtaccttttttgttttaacgtgtttgcggactgttgactctgttgtgatgttttgtgtgtgtattgaaatagaaagtgaac-gtttttgtttag-
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GCCCTTGAAATGGAATATGGTTGCAAGCTGTGCATTGGGCCCTGTACCACAAGAGGAGAGgtatgttataagcatgattagttttggaagccaatctgattgtga----tgttttcttattttatttaaatattattatttttgtttaattaattttaccttct
upper sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S400_36V6.1 (Physcomitrella patens), 5'ss of exon 4
TCACTTGAGACGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgt-ttgtgtgtaccttttttgttttaacgt--gtttgcggactgttga--ctctgttgtg-atgttttgtgtgtgtattgaaatagaaagtgaacgtttttgtttag
||| |||| | | || ||||||||||| |||||||| |||||||| || ||||||||||| | | | || | | | ||| |||| | | || | ||||||| | || || || || | | | | ||| | || |
TCAATTGAAATGACATACGGATGCAAGCTTTGCATTGGACCTTGCACCACTAGAGGAGAGgtaccgaatttggctactcc-ctctgccgttgatttgggtgccgtaaagtctctgtttttcgtgcttcgt-cgtttgctcatgatttctcttaac-tattcgc----
upper sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ07136 (Selaginella moellendorffii), 5'ss of exon 4
TCACTTGAGACGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgtttgtgtgtaccttttttgttttaacgtgtttgcggactgttgactctgttgtgatgttttgtgtgtgtattgaaatagaaagtgaacgtttttgtttag
|| | || | |||||| ||||||||||||||||| || ||||| ||||| |||||||| ||||||| | ||||| | | |||| | |||| | | ||||
TCCTTAGAACAAGCGTATGGTTGCAAGCTCTGCATTGGTCCCTGCACGACAAGGGGAGAGgtac--------------tgttttagtgagtttg------atcggtatagttgcaacattttct-tatgtag-----------------------------
upper sequence: GLYMA02G03750.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ09242 (Selaginella moellendorffii), 5'ss of exon 4
TCACTTGAGACGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgtttgtgtgtaccttttttgttttaacgtgtttgcggactgttgactctgttgtgatgttttgtgtgtgtattgaaatagaaagtgaacgtttttgtttag
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TCTTTAGAACAAGCGTATGGTTGCAAGCTCTGCATTGGTCCCTGCACGACAAGGGGAGAGgtac--------------tgttttagtgaatttg------atcggtatagttgcaacattttct-tgtgtag-----------------------------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|22540425|gb|BU090268.1|BU090268EST: CGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAG GGATTCTATTATGATGCATTTTACGGGGAGTTGGGTCTCAATGACGATCAC
genomic: CGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgtttgtgtgt ... ttttgtttagGGATTCTATTATGATGCATTTTACGGGGAGTTGGGTCTCAATGACGATCAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCACTTGAGACGGAGTATGGATGCAAGCTCTGCATTGGGCCTTGCACTACAAGAGGAGAGgtttgtgtgtaccttttttgttttaacgtgtttgcggactgttgactctgttgtgatgttttgtgtgtgtattgaaatagaaagtgaacgtttttgtttag
- - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA