Sequence
atgc intronic sequence ATGC exonic sequencegttagtcttgatatattctttcattctttgacttgttatttccatataatttaattttttaaggttaaatgaaacttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
Basic information
species | Glycine max |
transcript | GLYMA03G37910.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G180065_T01 (Zea mays), 3'ss of exon 6
gttagtcttgatatattctttcattctttgacttgtt-atttccatataatttaattt-----tttaaggttaaatgaaacttcta-------tgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
|| ||| || | | || |||| | || || || |||||| ||| |||| | | | |||||| || ||||| ||||| || || || |||||||| |||||| | ||||| |||||||| || ||||||||||| ||||| | || ||||| || ||||| |||| |
-gtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
upper sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G02010.1 (Arabidopsis thaliana), 3'ss of exon 6
gttagtc-ttgatatattctttcattctttgacttgttatttccatataatttaattttttaaggttaaatgaaacttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
|| ||| | |||| | || | || || || || | | | | || | | | | | | | || || ||||| ||||||||||| ||||| ||||||||||| || || ||||| |||||||| || ||||| ||| | || ||| || | ||||| || ||
gtgagttgctcatatctctcgacagttttca----tatacaaccttaaattctgagttgcctattgaatccgcgatctgttttcagATATGTTGCGCCTGAATATGCAATGACGGGACACCTACTCGTCAAGAGTGATGTTTATAGTTACGGTGTGGTCCTTCTCGAATTGTTAACTGGTAGAAAA
upper sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
gttagtcttgatatattctttcattctttgacttg---ttatttccatataatttaattttttaaggttaaatgaaacttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
||| ||| ||| |||| |||| | | ||| | | || |||||| | | | | ||| | | | ||||| || || ||||| ||||| ||||||||||| ||||| || |||||||| ||||| |||||||| |||||| | || || || | || || || | |
-----gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
upper sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S478_19V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------------------gttagtcttgatatattctttcattctttgacttgt-tatttccatataatttaatt-------ttttaaggttaaatgaaacttctat----gtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
|||| | |||| | || | | | | ||| | | | || |||| || | || || ||| | | |||| || || || || |||||||| |||||||||||||||||||| || |||||||| || || |||| ||| || || ||| | || | || | |||||||||
gtaattattacgttcttttccacaagttacttcttgtacgagaatcaattttagacctgatttcttgtcctctaaatcaatttgaatgtattactagaattcaaatgtcttgtttctactcttatgtttactttcttgtctgacagATATGTGGCACCTGAATACGCCATGACTGGACACCTACTGGTGAAAAGTGATGTCTACAGCTTTGGAGTAGTGTTGTTAGAGTTACTCTCAGGCAGGAAG
upper sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ26603 (Selaginella moellendorffii), 3'ss of exon 4
gttagtcttgatatattctttcattctttgacttgttatttccatataatttaattttttaaggttaaatgaaacttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
| | | | ||| | ||| || | | | ||| | | || || |||||||| || || || |||||||||||| ||||||| ||||| ||||| || |||||||| || |||||||| || |||| | || || |||
--------------------------gtaggaatctctttttcgtattcgcta--ctactgatgtt--------tctttgcacagATATGTTGCTCCAGAGTACGCGATGACTGGACACTTACTTGTGAAAAGCGACGTCTACAGCTATGGCGTAGTCTTGCTTGAGTTGCTCTCCGGGAGAAAGMapped 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|6566531|gb|AW234174.1|AW234174EST: CCTGAAGGCAGATCTAATTATTTGTCTACTCGTGTCATGGGGACATTTGG GTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGA
genomic: CCTGAAGGCAGATCTAATTATTTGTCTACTCGTGTCATGGGGACATTTGGgttagtcttg ... ttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgttatttccatataatttaattttttaaggttaaatgaaacttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
atttaat putative branch site (score: 4)
cttctat putative PPT
ttatttccatataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtcttgatatattctttcattctttgacttgttatttccatataatttaattttttaaggttaaatgaaacttctatgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA