Sequence
atgc intronic sequence ATGC exonic sequence...tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
Basic information
species | Glycine max |
transcript | GLYMA02G10790.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 3'ss of exon 7
---------------------------------tttaatgctacaactaatgc---tgtggcagc---attgtttaaccttttt------ttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
| ||| | ||| | || || |||| | |||| | ||| || |||| ||| || || | || || ||| | | | || || |||| || ||||| || || |||||||||||||| || || | | |||||||||||||||||||| || || ||||| || |||||||| |||||||| |
gtcacaagcaaaatatcttcataaaattttacttgaaataattcaaattatttgtttgcaacagctttactgttcagttgtttactaccattgcttcacgattgttggaaacctg-acttgctt-tgtttctggcatt-ctgtagGAGGCTACAATCGAACAACTTCTTCCTATTTTCCTTTCTTTGCTCAAGGATGAATTTCCTGATGTTCGGCTCAATATAATCAGCAAGCTCGATCAAGTTA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G122135_T01 (Zea mays), 3'ss of exon 7
-----tttaatgctaca-actaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
| | || | || ||| ||| | || || | | | || | ||| | || || | | || || ||||| || ||||||||| || || || ||||||||||| ||||||||||| | |||||||||||||||| ||||| || || || || || |||||||||||||| || |
gtgatatcagtgatgcagacttatgtttcaattatatggtgt------tgatactgttggcattccatgtaagctgatcgtattaataccttttttttg---gcagGATGCTACCATGGAACAGCTTCTTCCAATTTTTCTCTCTTTGCTGAAGGATGAATTTCCAGATGTTCGGCTTAACATAATCAGCAAGCTTGATCAGGTTA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 7
tttaatgctacaactaatgctgtggcagcat-tgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
|| || | | |||| | ||| ||||| | | || | || | | | | ||| | | || | |||||| ||||||||| || ||||| |||||| |||| ||||| ||||| | ||||| || |||||||||||||| || || || || || ||||| ||||||||||| |
----gtgatatcagtgatgca-----aacatgtgtttccagaatatggtgttgacaactgttgacattccatgtaagctgatcatctcttctttg--gcagGATGCTACCATTGAACAGCTTGTTCCAATTTTCCTCTCTTTGTTGAAAGACGAATTTCCTGATGTTCGACTTAACATAATCAGCAAACTTGATCAAGTTA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G25800.2 (Arabidopsis thaliana), 3'ss of exon 6
tttaatgctacaactaat-gctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
|| | |||| | ||| || | | | |||| || | | | | | || | || |||| | |||| ||||||||||||||||||| || ||||| || ||||| || || ||||| ||||| || || ||||||||| | || || || ||||| ||||| |||||||
-acaaaaatgagtttaattgacgtgcgtttcttatacaggatgttttggttggattgtgtatgttgcagattttaacttcacgttgttttttctattttagGATGCAACAATTGAGCATCTCCTTCCAATCTTTCTTTCTCTATTGAAAGATGAGTTCCCGGATGTACGCTTGAACATTATCAGCAAACTTGACCAAGTGA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G25490.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------------------------------------------------------tttaat--gctacaactaatgctgtggcagcattgt-ttaacctttttt--tctttcaaaattt-ccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
||| || | | || || | |||| || | | || | | || || | || ||| ||| ||| | | |||| | | ||||| |||| |||||||| || | || |||||||| ||||||||||| ||||||||||||||||| ||||| || |||||||||||| | |||||||| |
gtatgaactgaagatagccaacattttcgcatcttgtgacaatgttctgagatttaatttgttttatggttttcatcaacaaaatcagccataccttgtgttatggcgtggttataccagccccaactggtgttgcagaccttatcaaaaaattattaacatactaaaatctttc---aatacagGACTCAACCATTGAGCATCTGTTACCAATTTTTCTTTCCCTTTTGAAAGATGAATTTCCTGATGTGCGCCTTAACATCATAAGCAAGTTAGATCAAGTCA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G13320.2 (Arabidopsis thaliana), 3'ss of exon 7
tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgc--ctgtttatgtg---tttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
|| |||| | | | | | | ||||| | | | || | | ||| || || | || || | || ||| |||||||||||||||||||| |||||||| || ||||| || || ||||| || |||||||||||||||||| |||| || || ||||| ||||| |||||||
-----cgcaacaataatctatataagaaaacctcactatgtttttctacacaagatatttagttggattttgcagcttttaacttggcattgatattcatttcagGATGCAACAATTGAGCATCTTCTTCCAATCTTTCTTTCTCTATTGAAAGACGAATTTCCTGATGTACGCTTAAACATTATCAGCAAACTTGACCAAGTGA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 6
--tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgt-ttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
|| || |||| | | | | | | || | || | || | |||| | || ||| | ||| || | | ||||||||||||||||||| || |||||||| |||||||| || |||||||||||||| |||||||||||||| ||||||||||| ||||||||||||||| | |
caattgatctcacaattcaaatt-tattgggagtgc--atttttctgttaagatcatgtttcttgaattggatttctgaactttgtcttggttgctgatgcagGATGCAACAATTGATCAACTTCTTCCAATTTTTCTTTCTCTTTTGAAGGATGACTTTCCTGATGTACGACTAAATATCATTAGCAAGCTTGATCAAATAA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S214_34V6.1 (Physcomitrella patens), 3'ss of exon 6
tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgttttt------ctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
| || | | | || | ||| | || || | | | | | | | || || | ||| | | |||| | ||| | || |||||||| || || |||||||| ||||| || || ||||| || || ||||||||||||||||| ||||| || |||||||| || |||||||| ||||||||||
-tcaaactttggattgatatttctgcatccttcttaa-----tatctgcataagcctctcaaaagtgatctgcatttcaatgtatcttttggcatcatttttgcagGAAGCTACCATTGAGCAACTTCTGCCCATATTTCTGTCACTGTTGAAGGATGAATTTCCAGATGTGCGACTAAATATTATCAGCAAGCTAGATCAAGTGA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S197_114V6.1 (Physcomitrella patens), 3'ss of exon 6
----tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
| |||| | || | | | || | | | | | | | | | | | | | || | | |||| | || |||| | ||| |||||| || || |||||||| ||| | || || || || || || ||||||||||||||||| || || || ||||||||||| |||||||| |||||||| |
gttttataatttttaaaatttt-ccatgaccaactgagtatatatgctatccaatgagagacaacgtgtaattccg--tgttgctttggttttatctat-gcagGAAGCTACTATTGAGCAACTTTTACCCATATTCCTATCACTGTTGAAGGATGAATTTCCAGACGTGCGGCTAAATATCATCAGCAAGCTAGATCAAGTCA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ35758 (Selaginella moellendorffii), 3'ss of exon 6
tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
| | | | | | | | | || | | |||||||| || ||||| || |||||| | || || ||| | ||||||||||||||||||| ||||| || | || || |||||||||||||| |||||||| |
--------------------------------------------------gtaggcaattcgtgctctttcgtcc-tgtgctgattagtttggtttgcagGACGCGACAATCGAACAGCTTTTACCAATATTTTTGGCCCTTTTGAAGGATGAATTCCCTGACGTTAGGCTCAACATCATAAGCAAGCTGGATCAAGTCA
upper sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ10709 (Selaginella moellendorffii), 3'ss of exon 6
tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
| | | | | | | | || | | |||||||| || ||||| || || ||| | || || ||| | ||||||||||||||||||| ||||| || | || || |||||||||||||| ||||||
--------------------------------------------------gtaggcaatttgtgctctttcgtcc-tgtgctgattagtttggtttgcagGACGCGACAATCGAACAACTTTTACCAATATTTTTGGCCCTTTTGAAGGATGAATTCCCTGACGTTAGGCTCAACATCATAAGCAAGCTGGATCAA----Mapped 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|7146818|gb|AW508740.1|AW508740EST: GCTCTGCTTTGGCTTCCGTGATAATGGGAATGGCTCCAGTGTTAGGAAAG GATGCAACAATTGAGCGGCTGCTTCCTATTAGTCTCTCCCTGTGGAAGGAT
genomic: GCTCTGCTTTGGCTTCCGTGATAATGGGAATGGCTCCAGTGTTAGGAAAGgtataggtgc ... tttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
tgtttttctttatt CT-rich tract
tgtttttctttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaatgctacaactaatgctgtggcagcattgtttaacctttttttctttcaaaatttccaagaaactatgcctgtttatgtgtttttctttattgcagGATGCAACAATTGAGCAGCTTCTTCCTATTTTTCTCTCCCTTTTGAAGGATGAATTTCCTGATGTACGCCTAAATATCATAAGCAAGCTTGATCAAGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - -tgctaca
- - - - - - - - - gctgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgtgt