Sequence
atgc intronic sequence ATGC exonic sequence...gtcctttgccttaagtctgttatactgggtacgagaataatctctttagtaaattatgaatatgttcatctgaagttgaatgaatctatatttgcttcagGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGGTATGCGTCGTGATTGGCTTGTGCGTGACGCCAAAACTGGTGAAATCTTG
Basic information
species | Glycine max |
transcript | GLYMA06G23560.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G23560.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G08510.1 (Arabidopsis thaliana), 3'ss of exon 3
-gtcctttgccttaagtctg-ttatactgggtacgagaataatctctttagtaaattatgaatatgttcatctgaagttgaatgaatctatatttgcttca--gGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGGTATGCGTCGTGATTGGCTTGTGCGTGACGCCAAAACTGGTGAAATCTTG
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gctcatatgactaatgacttcttgcaccctgaattata-tgctctgcat-gcatattat--attgcatcataactcatttgcttattcaatatatgcctcacagGGGAGATGTTGTTGAAGTAGACACCTGGGTCAGTCAGTCTGGAAAGAATGGTATGCGTCGTGATTGGCTAGTTCGGGACTGTAATACTGGAGAAACCTTA
upper sequence: GLYMA06G23560.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g04480.t01 (Vitis vinifera), 3'ss of exon 3
gtcctttgccttaagtctgttatactgggtacgagaataatctctttagtaaattatgaatatgttcatctgaagttgaatgaatctatatttgctt--cagGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGGTATGCGTCGTGATTGGCTTGTGCGTGACGCCAAAACTGGTGAAATCTTG
| || || || | || | | | | || ||||| | | ||| ||| || | | || |||| || | | ||||||||||||||||||||| || || ||||| | |||||| ||||||||||| ||||||||||||||| | | ||||| ||||||||| |||| |
--acattatctgtagaaagctacaaatgattattcataaacttctttggaatatttagaaactgatagaaattgatggattgaactgatttccatcttgcagGGGTGATGTTGTTCAAGTGGATACTTGGGTATGTGCATCTGGGAAGAATGGCATGCGTCGTGATTGGATAATCCGTGATTGCAAAACTGGGGAAACTCTA
upper sequence: GLYMA06G23560.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S167_109V6.1 (Physcomitrella patens), 3'ss of exon 2
gtcctttgccttaagtctgttatactgggtacgagaataatctctttagtaaatta-tgaatatgttcatctgaagttgaatgaatctatatttgcttcagGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGGTATGCGTCGTGATTGGCTTGTGCGTGACGCCAAAACTGGTGAAATCTTG
| | || || | || | | | | | || | | | | | || | ||| | ||||| | | || | |||||| ||||||||| | || | |||||||||| ||||||| || |||||||| |||||||| ||||||||||| || || |||||| || | || ||
gccgctttagaaaaatgccttcgaattgtgaggttctcaaatgcaaccacattctggcggccaagtggctatgacacccattgaatttgtgcatgat-cagGGGCGATGTTGTTGAGGTGGGCACGTGGGTTGCTGCATCCGGAAAGAATGGGATGCGTCGAGATTGGCTTGTACGAGATTACAAAACAGGACAGATTTTA
upper sequence: GLYMA06G23560.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S121_22V6.1 (Physcomitrella patens), 3'ss of exon 2
----------------------------------------------------------------------gtcctttgccttaagtctgttatactgggtacgagaataatctctttagtaaattatgaatatgttcatctgaagttgaatgaatctatatttgctt-cagGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGGTATGCGTCGTGATTGGCTTGTGCGTGACGCCAAAACTGGTGAAATCTTG
| ||| || || | |||| | | || || | | | | ||| | || || || | || |||||| || ||||| | | ||||| ||||| | || || ||||||||||| |||||||| |||||||||||||| ||| |||| | || | || ||
gtacgttgcacatagattagaattccctcttcgatgtgctaattggcagagagtcgcccggtatatgaacggagtttaccacgaggtggagggttgtcttacggcttctttttgttacagaaccggcttccaagagcttgtgacatagatcatgtccatctgtgtgagcagGGGAAATATTGTTGAGATGGACACATGGGTGGCAGCTTCTGGGAAGAATGGAATGCGTCGGGATTGGCTTGTGCGAGACTACAAATCAGGACAGATTTTAMapped 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|151394670|gb|EV264541.1|EV264541EST: GGTGACTAAGATGCAGGTTGTGGTTGATAAATATCCTACATG GGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGG
genomic: GGTGACTAAGATGCAGGTTGTGGTTGATAAATATCCTACATGgtaagttggt ... tttgcttcagGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagtaaattatgaatatgttcatctgaagttgaatgaatctatatttgcttcagGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGGTATGCGTCGTGATTGGCTTGTGCGTGACGCCAAAACTGGTGAAATCTTG
tttgcttc CT-rich tract
aaattatgaatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcctttgccttaagtctgttatactgggtacgagaataatctctttagtaaattatgaatatgttcatctgaagttgaatgaatctatatttgcttcagGGGTGATGTTGTTCAAGTAGACACGTGGGTTTCTGCATCAGGGAAGAATGGTATGCGTCGTGATTGGCTTGTGCGTGACGCCAAAACTGGTGAAATCTTG
- -ctttgcc
- - - - - - - gtctgtt
- - - - - - - - - - -atactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatga