Sequence
atgc intronic sequence ATGC exonic sequence...tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
Basic information
species | Glycine max |
transcript | GLYMA07G30150.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 10
tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
| || || | | | || || | | ||| | | | ||| | | || | | | ||| | ||||||| |||||||||||||| || || | |||||||||||| || || ||||| ||||| ||||| || | ||| ||| | |||||||||||
-tgttgtatagagatctttacctactgatgttgtcagtgc--tacttgataggggtttaatgattttaaactcattagtttctctcaatttgctctgaaggagGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
upper sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
--tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
| || || | | | || || | | ||| | | | ||| | | || | | | ||| | ||||||| |||||||||||||| || || | |||||||||||| || || ||||| ||||| ||||| || | ||| ||| | |||||||||||
ctctgttgtatagagatctttacctactgatgttgtcagtgc--tacttgataggggtttaatgattttaaactcattagtttctctcaatttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
upper sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 9
-tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctatt-atataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
|| | | | |||| | | | |||| | || | | || | | | | || ||| | | | ||| |||| |||||||| |||||||| || || ||||| |||||||||||||| || || || |||||||| ||||| || | ||| ||| | |||||||||||
gacattatccaaatggaaataatg-tagtatatttctgacgttgagctcgtggatctctgtaaatttagactgattgaattccttcacattgcctctt-cagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
upper sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtc-ctat-----tatataatgcaataaaattt---tatct-tacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
|| | ||| | || | || | || || | | ||||| | | ||| |||| || | | | | |||| ||||| | |||||||||||||||||||| ||||||||||||||||| ||||| || || || |||||||| || || |||| ||| ||| | ||||| ||||||
--------atggagaacctcacaat--tttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
upper sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ15047 (Selaginella moellendorffii), 3'ss of exon 9
tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
| | | | ||| | ||||| ||| ||||| |||||||||| ||||||||||| ||| |||||||||| ||||| || |||||||| || ||||||||||| || ||| | |||||||| || ||
---------------------------------------------------gtgcgttttttagttttgttatacgtccttctaacatttt--tctacagGAGGTTGATCCATGTGATGATCTGACTGATGAAGATATACGAACAGCCATTCAAAATGCCACTGGTCCAAAAAATGTTCTGTTTGTGCCCGAG
upper sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ37641 (Selaginella moellendorffii), 3'ss of exon 9
tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
| | | | ||| | ||||| ||| ||||| |||||||||| ||||||||||| ||| |||||||||| ||||| || |||||||| || ||||||||||| || ||| | |||||||| || ||
---------------------------------------------------gtgcgttttttagttttgttatacgtccttctaacatttt--tctacagGAGGTTGATCCATGTGACGATCTGACTGATGAAGATATCCGAACAGCCATTCAAAATGCCACTGGTCCAAAAAATGTTCTGTTTGTGCCCGAGMapped 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|192326358|gb|FK015890.1|FK015890EST: CATCTTTGTGAAGAGCTTAGAG GAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATA
genomic: CATCTTTGTGAAGAGCTTAGAGgtagtagata ... tatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATA
EST:
gi|7146674|gb|AW508596.1|AW508596EST: GTGCACGAATTCATTACATTTTTCAATCCATCTTTGTGAAGAGCTTAGAG GAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATA
genomic: GTGCACGAATTCATTACATTTTTCAATCCATCTTTGTGAAGAGCTTAGAGgtagtagata ... tatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
ttttatctt CT-rich tract
tattatataatgcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
-cactcca
- - - - - - - cacccaa
- - - - - - - - - - - - -catgttc
- - - - - - - - - - - - - - - - - - - - - - - - aatgcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa