Sequence
atgc intronic sequence ATGC exonic sequence...ttatatgccataattgtaattcttaatctttgcattggaggttaaaaaactggtcttgaagtaaattataacgatcatccgttgtaacttctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAAGGCAATGGGCCCCTGTATTTGGTGAGCTTGCCCTTGGTCCTGAAAGGAA
Basic information
species | Glycine max |
transcript | GLYMA05G33050.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33050.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g07194.1 (Oryza sativa), 3'ss of exon 6
ttatatgccataat-tgtaattcttaatctttgcattggaggttaaaaaactggtcttgaagtaaatta--taacgatcatccgt-tgtaacttctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAAGGCAATGGGCCCCTGTATTTGGTGAGCTTGCCCTTGGTCCTGAAAGGAA
| ||| | | | || | || | | | | | | | |||| || | ||| | | | ||||| |||| ||||||||| || ||||||||||| ||||| ||||||||||||||||||||||||||||| ||||| ||||| | |||| || | ||||||||| | |||||
--tcgtatcatggcatacagacaatcattctagctaggaaaaagatggcattaggcctgaaacaacacaagcaactgtgtgacatgtgtaagttctg--tgcagATAAGCCTCAAATTGAAGAGCTGCACCAATTTTTGGAGTTCCAGCTTCCAAGGCAGTGGGCTCCTGTTTACAGTGACCTCCCTCTTGGTCCTCAGAGGAA
upper sequence: GLYMA05G33050.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G435034_T01 (Zea mays), 3'ss of exon 4
ttatatgccataattgtaattcttaatctttgcatt---ggaggttaaaaaactggtcttgaagtaaattataacgatcatccgttgtaactt--ctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAAGGCAATGGGCCCCTGTATTTGGTGAGCTTGCCCTTGGTCCTGAAAGGAA
|| ||| || | || || | | | | | | | | | |||| ||| | | | | || | |||||||||||| | ||| || ||| | ||||| |||||||||||||||||||||||||| ||||| ||||| | |||| || || || |||||| | |||||
-----acttatggttgcaacttgcaaagcacacaatctagaaaaattagtattatgccgcaagtccaattgcaacaacctggtgatatattgaaatttggtgcagATAAACCTCCAATCGAGGAATTACATCAGTTTTTGGAGTTCCAGCTTCCAAGGCAGTGGGCACCTGTTTACAGTGATCTCGCTCTGGGTCCTCAGAGGAA
upper sequence: GLYMA05G33050.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G028758_T02 (Zea mays), 3'ss of exon 5
--ttatatgccataattgtaattcttaatctttgcattggaggttaaaaaactggtcttgaagtaaattataa---cgatcatccgttgtaacttctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAAGGCAATGGGCCCCTGTATTTGGTGAGCTTGCCCTTGGTCCTGAAAGGAA
|| ||||| | | | || | |||| | || | ||| | | | | || || | | || || | | | ||||||||| || | ||||||||||| |||||||||||||||||||| || ||||| |||||||| ||||| | |||| | | ||||||||| | ||||
acaaatgtgccacgttgccagcttacaagaatgtgattg-----tgaacagctgatataacaatgccctaaaaactgggtgatagatttattcaatttattgcagATAAGCCTCCGATTGAAGAACTACATCAATTTTTGGAGTTCCAACTACCAAGACAATGGGCACCTGTGTACAGTGACCACCCTCTTGGTCCTCAGAGGAG
upper sequence: GLYMA05G33050.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g03060.t01 (Vitis vinifera), 3'ss of exon 5
---ttatatgccataattgt--aattcttaatctttgcattgg-aggttaaaaaactggtcttgaagtaaattataacgatcatccgttgtaacttctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAAGGCAATGGGCCCCTGTATTTGGTGAGCTTGCCCTTGGTCCTGAAAGGAA
| || | | | | || |||| | | ||| | || || || | | || | || | | ||||| || || | ||||||||| |||| |||||||||||| ||||| ||||| ||||| || ||||||| ||||||||| || ||||||||||| ||||| |||||||||||| ||
tgttaatccattaaatctatgaaaagcttactggtgttatttataaattccaagtctcattctct-gtgatttgtggc--tcatcaactg---gtttggagtgcagATAAGCCACCAATTGAAGAACTTCATCAGTTTTTAGAGTTTCAACTTCCAAAGCAATGGGCACCGGTATTTGGTGACCTTGCAGTTGGTCCTGAAACCAAMapped 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|19054030|gb|BM732697.1|BM732697EST: AATAAATGGGAGTGGATATTTAACTCATGCCATGAATCTCTATTTACGCT ATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAA
genomic: AATAAATGGGAGTGGATATTTAACTCATGCCATGAATCTCTATTTACGCTgtaagcgact ... ctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaactggtcttgaagtaaattataacgatcatccgttgtaacttctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAAGGCAATGGGCCCCTGTATTTGGTGAGCTTGCCCTTGGTCCTGAAAGGAA
ttctaac putative branch site (score: 1)
cttct CT-rich tract
ttgaagtaaattataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatatgccataattgtaattcttaatctttgcattggaggttaaaaaactggtcttgaagtaaattataacgatcatccgttgtaacttctaactgcagATAAACCACAAATTGAAGAACTGCATCAATTTTTGGAGTTCCAGCTTCCAAGGCAATGGGCCCCTGTATTTGGTGAGCTTGCCCTTGGTCCTGAAAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- -tatgcca
- - - - - - - - - - - - - -ctttgca
- - - - - - - - - - - - - - - - - ttggagg
- - - - - - - - - - - - - - - - - - - - - taaaaaa