Sequence
atgc intronic sequence ATGC exonic sequence...tgcacctctggttatataaatcatgaaaagtctgtaaatgttgcatttatgtgaatgctttgtctactgttttgtttacgaatgtgtaatttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
Basic information
species | Glycine max |
transcript | GLYMA15G11890.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 3'ss of exon 13
-----tgcacctctggttat-ataaatcatgaaaagtctgtaaatgttgcat--ttatgtgaatgctttgtctactgttttgtttacgaatgtgtaatttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
| || | || | ||| | ||| | | | || ||| | || | | ||| | ||| |||||| ||| | || ||| |||| || | |||||| |||||||||||||| |||||||||||||| |
actaatttgggtcagattttcatataatatgcattgcat-tacctgtcatttccttgtttaaatcataaaactaatgtttttttttgttttctgcaat-------cagGAAAGTACAAGCCAGTGATCAAGAAGGCTATGGTGGAACTTGACG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 6
-tgcacctctggttatataaatcatgaaaagtctgtaaatgttgcatttatgtgaatgctttgtctact---gttttgtttacgaatgtgtaatttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
| | | | ||| | ||| | ||| | | | || || ||| || || |||||| | || | || || ||| | | | |||| || |||||||| |||||||||||||| ||||||||||| || |
gtccccttttgggtttattag-catttatgcttcggctatatt---ttttgctgcatcgtttgtcgcttcgagtgtaacttttgacattgttctctgcattcagGCAAGTTCAAGCCAGTGATCAAGAAGGCTATGGTGGAACTCGATG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G059151_T01 (Zea mays), 3'ss of exon 13
------------------------------------------------------------tgcacctc--tggttatataaatcatgaaaagtctgtaaatgttg--catttatgtgaatgctttgtctac-tgttttgtttacgaat---------gtgtaatttct----ttg-----------cagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
| | ||| || | || || ||| || | | ||| | ||| | | || || | | | |||| ||| | | |||||| || | ||| |||| || |||||||| |||||||||||||| ||||| |||||||| |
gtaattttcttgcttcacctcgtttccaactgatggctactctactatgttctagttacattcttctcgatgttcattcaaccaatgtgtgacatgccattcttgttccttttttcggttgattagcatttatactttggttataatttgtgccggagtgtaacttttgacgttgttctctgcaatcagGCAAGTTCAAGCCAGTGATCAAGAAGGCTATGGTCGAACTTGATG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 3'ss of exon 13
tgcacctctggttatataaatcatgaaaagtctgtaaatgttgcatttatgtgaatgctttgtctactgttttgtttacgaatgtgtaatttc--tttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
| | |||||||||| ||| | ||| | ||||| |||| |||| || | | || | ||||| |||||||||| |||||||||||||||||||| |||||||||||||||||||
-----gtacagaaatataaatcaataaagcttactaa--gacacattt---tgaa------atctagatattaaaaaatcagagt-tgatttcaacttgcagGTAAGTTCAAGCCTGTGATCAAGAAAGCAATGGTGGAACTTGAAG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 13
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 3'ss of exon 13
tgcacctctggttatataaatcatgaaaagtctgtaaatgttgcatttatgtgaatgctttgtctactgttttgtttacgaatgtgtaatttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
|| |||||| || | | || || |||| || | || |||| | || | | ||| |||| ||||||||||||||||||||| |||||||| || ||||| ||||||||||
----------gtaatataagtcgatactatcgtg-aagtgtttgataagattatattcttttccaacattctcttttttttatgt----------tgcagGTAAATTCAAGCCTGTTATCAAGAAAGCTATGGTTGAACTTGAAG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 13
tgcacctctggttatataaatcatgaaaagtctgtaaatgttgcatttatgtgaatgctttgtctactgttttgtttacgaatgtgtaatttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
||| | | |||| | || | ||||| | | || | ||| |||| || | |||||||||| ||||||||||||||||||||||||||||| |||||||| |
agcatttatcaggggggttctcatctcagttcatcgtttccattatttagtacatcagctaacctttccatccctttctgaattctaaaactgcttgcagGTAAGTTCAAGCCTGTGATCAAGAAGGCAATGGTTGAACTTGATGMapped 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|21602004|gb|BQ612335.1|BQ612335EST: TGTTGGTGGAACTGCACTCACCTCACTGATGGATGTGGAGAGGAGGCATG GTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
genomic: TGTTGGTGGAACTGCACTCACCTCACTGATGGATGTGGAGAGGAGGCATGgtacacactt ... ttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatgtgaatgctttgtctactgttttgtttacgaatgtgtaatttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
tttctttgc CT-rich tract
taatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcacctctggttatataaatcatgaaaagtctgtaaatgttgcatttatgtgaatgctttgtctactgttttgtttacgaatgtgtaatttctttgcagGTAAATTCAAGCCTGTGATCAAGAAGGCAATGGTGGAACTTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
tgcacct
- - - - - - - - - - -catgaaa
- - - - - - - - - - - - - - -gtctgta
- - - - - - - - - - - - - - - - - - - - -tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - gtgaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgtg