Sequence
atgc intronic sequence ATGC exonic sequencegtaaggttttattttcttctacattgtggctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
Basic information
species | Glycine max |
transcript | GLYMA07G15170.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g09570.1 (Oryza sativa), 3'ss of exon 6
gtaaggttttattttcttctacattgtggctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
|| |||||||| | || | | | ||| | ||| | || | ||| || | ||| ||| | | | |||| || || ||||||||||| ||||||||||| || ||||||||||| | || || ||||| || |||||||| ||||| |||| || |||||||| |
--------gtactttcttctttccagcacacttgagtttggatttt---cttcat-------gctaatcgctaagatt-----gatgttgaattgtt--tgcacagGTGATCGACAAGTCCTTTGGTTTTGACACTGCGGTGGAGGAGGCTCAGAGGGCCATCAATGCTGCTCATGTTGAGGCTGAGAGTGCAGAGAATGGCATTG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 8
gtaaggttttattttcttctacattgtggctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
| || || | ||| || | || | | || | | || | | | | | ||| ||| | | |||| ||||| | || ||||| || |||||||| ||||||||||| ||||| || |||||||| || ||||| ||||||| ||| | || ||||| ||||
----------------------gtaatgatctttttcacattatattgacattag-ggtatgaattatggtgtatatgcataatttgtttctaccctatgtg-cagGTAATTGACAGATCATTTGGTTTCGACACTGCAGTTGAGGAGGCCCAACGTGCAATAAATGCTGCTCATGTAGAAGCTGGAAGCGCCGAGAATGGTATAG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G816636_T02 (Zea mays), 3'ss of exon 8
gtaaggttttattttcttctacattgtggctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttctgc--tgtctctttgatgcttaa----tagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
|||| | || | | | || ||| | || | || | ||| | || | | ||| ||| || | | | |||| ||||| ||||| ||||| || ||||| || ||||||||||||||||| || |||||||| || ||||| ||||||| ||||| ||| ||||| ||||
gtaatatgtttctccacattttagtgatattttggtggaaaaaatggaagatgacatttgacatgatcacatgaaccttgtgtgcacgaactcactgttacccatgtttcagGTAATTGACAAGTCATTTGGTTTCGACACAGCAGTTGAGGAGGCTCAACGTGCAATAAATGCTGCTCATGTGGAAGCTGTAAGTGCTGAGAATGGTATAG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G443985_T03 (Zea mays), 3'ss of exon 8
gtaaggttttattttcttctacattgtggctttaaactcataatttaa-accccatt-agcatcat----tgattggtaaatttcttctgc--tgtctctttgatgcttaa----tagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
|||| | || | | | || ||| | | ||| || | ||||| ||| || ||| || | | ||| || | | | | |||| ||||| ||||| ||||| || ||||| || || |||||||||||||| || |||||||| || ||||| || |||| ||||| ||| ||||| ||||
gtaatatgtttctccacattttagtgacatttttgtgtaaaaatggaagatgccatttgacatgatcacatgaacaacgaaccccatatgcgtgaattcaccgttacccatgtttcagGTAATTGACAAGTCATTTGGTTTCGACACAGCAGTCGAGGAGGCTCAACGTGCAATAAATGCTGCTCATGTGGAGGCTGTAAGTGCTGAGAATGGTATAG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G080375_T04 (Zea mays), 3'ss of exon 6
gtaaggttttattttcttctacattgtggctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
|| || | || || | || | ||| | | ||| | ||| |||||| || || | ||| || || |||| |||| ||||| ||||| ||||| |||||||||||||| |||||||| || | || || ||||| || ||||| || |||||||||| || || ||||| |
-----gtacgatctgctcctcctgcgtatttgaaaaaaaaatagctaattattgtc--cattcctgattg-tagcttcatcctg--aactgctt-atgc-----agGTGATTGACAAGTCGTTTGGATTTGACACTGCTGTGGAGGAGGCCCAGAGGGCCATCAATGCTGCTCATGTCGAGGCTGAAAGTGCGGAGAACGGCATCG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 8
----------------------------------------gtaaggttttat-tttcttctacattgtggctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttct---gctgtctctt---------tgatgctta-atagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
|| | | ||| | | || | | | |||| ||| || || || || || |||| |||| | | | || | || | |||| | |||||||||| ||||||||||||||||||||||||||||||||||| ||||| ||||| |||||||||||||||||| |||||||| | || ||| | || |
gtacatctctttgtttccttaattgctgattataggaccggttggatattacacctgatttattgcatagatataaattcaaaaac--aatttttttcctattttttattgaccaattctctttttagttgatttttacctccgactattgctggtacagGTTATTGACAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCCCAACGTGCTATTAATGCAGCACATGTTGAATCTGAAAGTATCGAGAATTGTATTG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S69_13V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------gtaaggttttattttcttctacat---tgtg-gctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaa-tagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
| |||| |||| | |||| || | |||| | ||| || | | | | || |||| | | || || ||| || | || | |||||||||||||| || || |||||||| || || || || |||||||| || |||||||| ||||| |||||||| ||| | | ||||| | |
gtaatgtgctccttatagtacaacacttgaatttttttttactacacatgcttgcgtgcttatgtcgcatgatgatagcatcccgttgcttatatattgacctcctagtccttgggttacttggagatgagagcagATAATTGATAAGTCCTTCGGGTTCGACACTGCCGTGGAAGAAGCACAACGAGCAATCAATGCAGCTCATGTGGAAGCTGAGAGTACTCATAATGGTGTGG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S327_30V6.1 (Physcomitrella patens), 3'ss of exon 8
---------------------gtaaggttttattttcttctacat-tgtggctttaaactcataat-ttaaaccccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
| || | || |||| |||| | | | ||| | | |||| | | | | | | |||| || | | ||| | | || || | ||||||||||||||||| |||||||||||||| || || || |||||||| || |||||||| ||||| ||||| |||||| | | ||||| | |
gtactatacatcatccctactacacagtgacgcgctttttcacatgtgtgcttatttccacatgttgcctgaattcattcgtgtgcgttctgacttgttctcttttgggatttgtttcaa--tgaacagATAATTGATAAGTCCTTTGGATTTGACACTGCTGTGGAAGAAGCACAACGAGCAATCAATGCAGCTCATGTGGAAGCAGAAAGTACTCATAATGGTGTTGMapped 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|33390216|gb|CA853423.1|CA853423EST: CAAAGTTTCAGTTGTAGGTATCCCCAAAACCATAGATAATGATATCCCG GTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGA
genomic: CAAAGTTTCAGTTGTAGGTATCCCCAAAACCATAGATAATGATATCCCGgtaaggtttt ... tgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGA
EST:
gi|7591258|gb|AW706995.1|AW706995EST: TCAAAGTTTCAGTTGTAGGTATCCCCAAAACCATAGATAATGATATCCCG GTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGA
genomic: TCAAAGTTTCAGTTGTAGGTATCCCCAAAACCATAGATAATGATATCCCGgtaaggtttt ... tgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
taaatttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggttttattttcttctacattgtggctttaaactcataatttaaaccccattagcatcattgattggtaaatttcttctgctgtctctttgatgcttaatagGTTATTGATAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCTCAACGAGCTATAAATGCAGCACATGTTGAAGCTGAAAGTGTTGAAAATGGCATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA