Sequence
atgc intronic sequence ATGC exonic sequence...tcagtcactaaacttactgtgagaacagtttatggaaagggcagcagaatcatgatgctaaaacttattattattgctgattgtacttgtctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
Basic information
species | Glycine max |
transcript | GLYMA08G22210.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G22210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G054715_T07 (Zea mays), 3'ss of exon 1
tcagtcactaaacttactgtgagaacagtttatggaa-agggcagcagaatcatgatg-ctaaaacttattattattg--ctgattgtacttgtctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
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---actactctaatt-ccatacatttggattgtcaattactgtgtcatatcttcagtggcttattgttatttctgttattctgtacctccttttgtctcaacagATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTATAGTGGAGATGACTTGACAAATGTTTGCCGTGATGCTTCAATGAACGGTA
upper sequence: GLYMA08G22210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G017305_T02 (Zea mays), 3'ss of exon 3
tcagtcactaaact-tactgtgagaacagtttatggaaagggcagcagaatcatgatgctaaaacttattattattgctgattgtacttgtct-ttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
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tcaatgattgtgccatatcttcag--tggcttcttgttattgccgtgcctccttttatatgacagataacgttactgctctacctccttttatatctgacagATAGCCGCAGATGTTAACATCGACGAGGTTGCTCGGAGGACAGAAGGCTATAGTGGAGATGATCTGACAAACGTTTGCCGCGATGCCTCAATGAATGGCA
upper sequence: GLYMA08G22210.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 6
tcagtcactaaacttactgtgagaacagtttatggaaagg-gcagcagaatcatgat--gctaaaacttattattattgctgattgtacttgtctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
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ttgctcattgattttaacctacttg-acttaacaatcatgtactgtatactccttattaagctagatatgtctttattg--ggttgttgtattcatctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCAMapped 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|213595032|gb|DB979274.1|DB979274EST: CTGATCCGGATCAATTTGAAGACTGTTGAG GTTGTTTCTGATGTCATTGTAGACGAAGTGGCTCGACGGACAGAGGGATAT
genomic: CTGATCCGGATCAATTTGAAGACTGTTGAGgcaagttgtg ... ctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaatcatgatgctaaaacttattattattgctgattgtacttgtctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
cttgtctttc CT-rich tract
atgctaaaacttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcagtcactaaacttactgtgagaacagtttatggaaagggcagcagaatcatgatgctaaaacttattattattgctgattgtacttgtctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
-cagtcac
- - - - - - cttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - tgatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtacttg