Sequence
atgc intronic sequence ATGC exonic sequence...acttctagctgcaaattagttactatagtcattagttttgtgtatacttgcagttgaatacaaatcaatatattgttatattttccttttcctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
Basic information
species | Glycine max |
transcript | GLYMA02G47860.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G47860.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os09g07830.1 (Oryza sativa), 3'ss of exon 8
acttctagctgcaaattagttactatagtcattagttttgtgtatacttgcagttgaatacaaatcaatatattgttatat--tttccttttcctatgcc----agTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
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-gttctaa----aagcttgccaaggaaaagatcacatttgaacatttctgtaatatttta-gtgccataatggtactatgtaatttgatcattatgtgcctcttagTTTGACCCAGTGAAACTGAAGAAGCTCCGTCCTAGTTTCAAGGAGAATGGTGGTACTGTTACTGCTGGGAATGCTTCTAGTATAAG
upper sequence: GLYMA02G47860.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G866758_T02 (Zea mays), 3'ss of exon 8
----acttctagctgcaaattagttactatagtcattagttttgtgtatacttgcagttgaatacaaatcaatatat-tgttatattttccttttcctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
| | |||| || | | | | | |||| | |||| | || | | ||| | || ||| | || | | | | ||| | | ||||||| | | || || |||||||| |||||||||||||||| ||| ||| | ||||| ||||| |||||||| || |||||
atgcaacgttccttgca---taatgagctttgctagcagttatttgtaagat--caatgcatgacagttttatttatgtcttgtgctattccttttgtgtcttagTTTGACCCAGTAAAACTAAAGAAACTTCGCCCAAGTTTCAAGGAGAATGGTGGTACAGTTACAGCTGGAAATGCTTCTAGTATAAG
upper sequence: GLYMA02G47860.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G085474_T04 (Zea mays), 3'ss of exon 8
--------------------------------------acttctagctgcaaattagttactatagtcattagttttgtgtatacttgcagttgaatacaaatcaatatattgtt-atatt-ttccttttcctatgcc----agTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
| | | || | || |||| || | | ||| | | | || || | ||| || | || | | |||| | || | ||||||| | || || | |||||||| |||||||||||||||| ||| ||| | ||||| ||||| |||||||| || |||||
gtaaatttcctcatgcaacaaagacataagactggcatgccctttaattcattattcttcctatggttgcaacaggcctccttacatagggacttgtgcagatgattattttactgatgccatgcaatttcttgtgtctcttagTTTGACCCAGCAAAACTGAAGAAACTTCGCCCAAGTTTCAAGGAGAATGGTGGTACCGTTACAGCTGGAAATGCTTCTAGTATAAG
upper sequence: GLYMA02G47860.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G830250_T01 (Zea mays), 3'ss of exon 6
----acttctagctgcaaattagttactatagtcattagttttgtgtatacttgcagttgaatacaaatcaatatattg-ttatattttccttttcctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
|| || | ||| || | ||| ||| | | | | |||| || || | ||| ||| || |||| | || || | ||||||| | | ||| || |||||||| |||||||||||||||| | | ||| | ||||| ||||| |||||||| || |||||
tgcaacatcccttagataatgagctttgataacagttattgtaagatcaa--tgcatatgg---cagtttaatttatgacttgtattatttcctttctctcttagTTTGACCCAGTAAAGCTAAAGAAACTTCGCCCAAGTTTCAAGGAGAATTGTGGTACCGTTACAGCTGGAAATGCTTCTAGTATAAG
upper sequence: GLYMA02G47860.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv12s0057g01200.t01 (Vitis vinifera), 3'ss of exon 8
--acttctagctgcaaattagttactatagtcattagttttgtgtatacttgcagttgaatacaaatcaatatattgttatattttccttttcctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
| |||| | |||| | | ||||| | | | ||| | | | | | || || || ||| | | | ||| ||||||| ||| || ||| || || || || ||||| ||||||| |||||||||||| ||||| ||||||||||| ||||||||
ttagttctttgagaaaataaata--tatagatacagaatcaatcaatattaccttctttgttaatatacattaatgtctattgctcttgtgctttttgctagTTTGACCCTGTGAAATTAAAGAAGCTCCGACCCAGTTTTAAGGAGAATGGAGGTTCTGTCACTGCAGGCAATGCTTCTAGCATAAGMapped 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|208337788|gb|GE134302.1|GE134302EST: GAAGGGGAAGACCATCAACAGTTGTTGATAAGGACGAAGGCCTAGGAAAG TTTGATGCTGCCAAGTTACG
genomic: GAAGGGGAAGACCATCAACAGTTGTTGATAAGGACGAAGGCCTAGGAAAGgtaaccatat ... cctatgccagTTTGATGCTGCCAAGTTACG
EST:
gi|208074647|gb|GD871266.1|GD871266EST: GAAGGGGAAGACCATCAACAGTTGTTGATAAGG-CGAAGGCCTAGGAAAG TTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGNGACT
genomic: GAAGGGGAAGACCATCAACAGTTGTTGATAAGGACGAAGGCCTAGGAAAGgtaaccatat ... cctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgcagttgaatacaaatcaatatattgttatattttccttttcctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
ttgttatattttcctt CT-rich tract
aatacaaatcaatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttctagctgcaaattagttactatagtcattagttttgtgtatacttgcagttgaatacaaatcaatatattgttatattttccttttcctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGAGGTTCTGTTACTGCTGGCAATGCTTCCAGCATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - -tagctgc
- - - - - - - - - - - - - - - - - -ttttgtg
- - - - - - - - - - - - - - - - - - - - - - - - -gcagttg