Sequence
atgc intronic sequence ATGC exonic sequence...cactactggatgacaataatgaaagtcatcacataatgtttttgggttctctttaacttctattttatttttatcttgactttctgccatgcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGGTTGGTGTTCTTCTGACAGGATTCAGTACATTGATCCTCTTAGCATTACA
Basic information
species | Glycine max |
transcript | GLYMA07G02680.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G02680.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------cactactg-gatgacaataatgaaagtcat-cacataatgtttttgggttctctttaacttctattttatt--tttatcttgactttctgccatgcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGGTTGGTGTTCTTCTGACAGGATTCAGTACATTGATCCTCTTAGCATTACA
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gcatgaggttttttatgttacagtggtgatgatgttgatgggaaatattctcattctgttataacttatcaaccaaatgctgaataatgaatcaatcattggtttttctt---tgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
upper sequence: GLYMA07G02680.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G80830.1 (Arabidopsis thaliana), 3'ss of exon 5
------cact-actggatgacaataatgaaagtcatcacataatgtttttgggttctctttaacttctattttatttttatcttgactttctgccatgcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGGTTGGTGTTCTTCTGACAGGATTCAGTACATTGATCCTCTTAGCATTACA
|||| | | | | || | ||| || ||| | | | ||| ||| | | | | | | || ||| || ||| ||| || || ||||| ||||| ||||||||||||| | |||||| || ||| | ||||||||||||||||| || ||||| |||| || | ||| | ||
gtatcacacttgtttactctttacagtgtgattcaatac-taacctctctctgttgatactaattgcca----aaatcggtttt--cttatatatatatatatatagTTATCGGAACAGCTTTTGCTCTGAACATGCTCTTTAGCATACCGGTGTGGATCGGTGTTCTTCTGACAGGCTTAAGTACGCTGATTCTTCTCGCACTTCA
upper sequence: GLYMA07G02680.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 6
cactactggatgacaataatgaaagtcatcacataatgttt---ttgggttctctttaacttctattttatttttatcttgactttctgc---catgcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGGTTGGTGTTCTTCTGACAGGATTCAGTACATTGATCCTCTTAGCATTACA
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---taatggtttcttaagtgcatcctctcttcattattattaacttgatgtgtcatgcacatttcttcaacc--tattctga-tttctgcatgtttctttttccagTGATTGGAACAGCCTTTGCATTGAACATGCTCTTCAATATTCCTGTGTGGTGTGGTGTTCTTCTTACAGGGCTTAGTACATTGGTTCTTCTAGCTTTACAMapped 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|151402052|gb|EV271865.1|EV271865EST: GCCATAGTGGCGTGTGACATTCCTGAAG TAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGG
genomic: GCCATAGTGGCGTGTGACATTCCTGAAGgtatagtata ... gcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctctttaacttctattttatttttatcttgactttctgccatgcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGGTTGGTGTTCTTCTGACAGGATTCAGTACATTGATCCTCTTAGCATTACA
tcttgac putative branch site (score: 3)
tttaacttctatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactactggatgacaataatgaaagtcatcacataatgtttttgggttctctttaacttctattttatttttatcttgactttctgccatgcgtatgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGGTTGGTGTTCTTCTGACAGGATTCAGTACATTGATCCTCTTAGCATTACA
-actactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgccat