Sequence
atgc intronic sequence ATGC exonic sequenceTTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag
Basic information
species | Glycine max |
transcript | GLYMA08G24160.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01140.t01 (Vitis vinifera), 5'ss of exon 5
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagcttta---ttaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttg-tag
||||| ||| ||||| || ||||||| ||||||||||||||||| |||| |||||||| |||||||||||||||| |||| |||||||||| |||||| ||| | | | | | |||| | ||| |||| || | || | | | | | | | || | |||
TTTTAGAAGCATGTACAAACACATTTCTATGGGATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTACACTACAGAAAGTTTGAAGgtaactaatttctgttcaaacacttcatatacttgtggcatggttttccatttaactctcatctctgttacaatgttgtctcattctctcaataatgccgctag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 5'ss of exon 8
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgt--gttgtag
|||||||| ||||| || || ||||| || ||||| ||||||||||| ||||| |||||||| ||||||||||||||||||||||||||| |||| |||||| | || || | | ||| | | || | | || | || | | | | || || | ||| || | | | || ||
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaact--ctttttgctcaaacactt--caattgagtc--agggcttgtagat--taactaaagttacttggtttcttactgaagtcccctctctgtcacag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgt--gttgtag
|||||||||||||| || || ||||| || ||||| ||||||||||| ||||| |||||||| |||||||||||||| |||||||||||| |||| |||||| || | | || | | | ||| | |||| | | ||| | | | | || | || | | | | | | | ||| ||
CTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTGACTGCACTGCAGAAGGTTTGAAGgtaaccaatt--ctgctaaaatactt--caattgaatc--agggtttgcaggt--taactataatcacttggtttctcactggagtcccctctctgttacag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 5'ss of exon 14
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgta--cgtaactaac-aacttaggtca-taaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag
|||||||| ||||| || || ||||| |||||||| ||||||||||| ||||| |||||||| ||||||||||||||||||||||||||| |||| |||||| || | | |||| | ||| | |||| || ||| | | || ||
CTTTAAAAGCATGTACCGCCACATTTCCAAAGGATCATGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactgttgcagattaactaaagtctcttggtttctta--ctaaagtcccctctct-attacag---------------------------------------
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01420.t01 (Vitis vinifera), 5'ss of exon 1
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaa-caaatatatgttaatttaactaaacttcttgtgttgtag
||||| || |||||||| | ||||||||||||||| |||| |||||||| ||||||||||||||||||||| |||||||||| |||||| ||| | | | | | | | || | | ||| | | || | | | || | |||||
----------ATGTACATACACATTTCTAAGGAATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTGCACTACAGAAAGTTTGAAGgtaactaaatt-ttgttcaaacacttcatatacttgtcgcatggttttccattaattgaattctcatctctgttacag-----------------------
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01470.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag
|||||||| |||||||| || ||||| |||||||| ||||||||||| ||||| |||||||| ||||||||||||||||||||||||||| |||| |||||| | | | | | | | || | | || | | || |||| | | | | || | | | || | | |||| ||
CTTTAAAAGCATGTATCGCCACATTTCCAAAGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaact--ttttctgttcaa---acacttaattgagtc--agggcttgcagatga--actaaagtcacttggtttctcactgaagtaccctctgttacag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag
|||||||| |||||||| | ||||| ||||||| ||||||||||| ||||| |||||||| ||||||||||||||||||||||||||| |||| |||||| | | | | | | || | | || | | || | || | | | | | || | | | || | | |||| ||
CTTTAAAAGCATGTATCGCAAAATTTCCCAAGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaatt--ttttttgttcaa---acacttaattgagtc--agggcttgtagat--taactaaagtcacttggtttctcactgaagtaccctctgttacag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01510.t01 (Vitis vinifera), 5'ss of exon 1
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaa-caaatatatgttaatttaactaaacttcttgtgtt-gtag-
||||| | || |||||||| | ||||||||||||||| |||| |||||||| ||||||||||||||||||||| ||||||||| |||||| ||| | | | | | | | | | | | ||| | | || | | | || ||||||| | | || ||| | | |||
----------ATGTACAGACACATTTCTAAGGAATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTGCACTATAGAAAGTTTGAAGgtaactaaatt-ctgttcaaacacttcatatacttgttgcatggttttccattaattgaattctcatctatgttacagtg--ttgtctccttctctcagtaat
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag---
||||| ||| |||||| | | |||| ||| |||||||||||||||| |||| |||||||| |||||||||||| ||||||| || ||||||| |||||| ||| | | | | | | | | | | | | ||| | | | | | || | | | | | | | || || || |
TTTTAGAAGCATGTATAGATACATTTTTAAGGGATCTTGGACATTCTTAGATCGGGATCATGGTTGGCAAGTTTCTAATTGCACAACAAAAAGTTTGAAGgtaaataaatt-ctattcaaacacttcatatacttgtggcatggttttccatttaactct-catctctgttacagtgttg-tctgctctcagtaatgccgcca
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01210.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag
||||| | | ||||| | || |||||||| ||||||||||||||||| | || ||||| ||||||||||||||||||||||||||| |||| |||||| ||| | | | | | || | | | || | |||||| || | | | |
TTTTAGAGGCATGTACAGACACATTTCTAAGGGATCTTGGACATTCTCGGTTCGGGATCAGCATTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTCAAGgtaactaaattctattgaaacacttcaatcaagtgacatggttttccattaattgaactctcatctctgttacag-------------------------
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgt--gttgtag
|||||||| ||||| || || ||||| || ||||| ||||||||||| ||||| |||||||| ||||||||||||||||||||||||||| |||| |||||| | || || | | | | |||| |||| | | | | | || || | ||| || | | | || |||
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaact--ctttttgctcaa---acacttcaattaagtcagggcttgcagattaactgaagt---tacttggtttcttactgaagtcccctctctgtcatag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01340.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag
|||||||| |||||||| || ||||| ||||| || ||||||||||| ||||| |||||||| ||||||||||||||||||||||||||| |||| |||||| | | | | | | | || | | || | | || || | | | | | || | | | || | | |||| ||
CTTTAAAAGCATGTATCGCCACATTTCCAAAGGTTCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaact--ttttctgttcaa---acacttaattgagtc--agggcttgcagat--taactaaagtcacttggtttctcactgaagtcccctctgttacag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01280.t01 (Vitis vinifera), 5'ss of exon 7
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgt--gttgtag
|||||||| ||||| || || ||||| || ||||| ||||||||||| ||||| |||||||| || |||||||||||||||||| ||||| |||| |||||| | || || | | ||| | | || ||| || || | | ||| || || | ||| || | | | || ||
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGCCAAGTTTCTGATTGCACTACAGAAGGTTTGAAGgtaact--ctttttgctcaaacactt--caattgagtc--aaggcttgcagattaac-taacgt-tacttggtttcttactaaagtcccctctctgtcacag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttct---tgtgttgtag
|||||||| ||||| || || ||||| |||||||| ||||||||||| ||| | |||||||| ||||||||||||||||||||||||||| |||| |||||| | || | || | | ||| | | || | | || ||| | | | | | || | | | |||||| | | | |||| ||
CTTTAAAAGCATGTACCGCCACATTTCCAAAGGATCGTGGACATTCTCAGATAAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaact--ctttctgctcaaacactt--caattgagtc--agggcttgcaaat--taactaaagtcacttggtt-tctcactaaagtcccctctctgttacagMapped 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|209716122|gb|BW662320.1|BW662320EST: ATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAG TGTTGTCTACTTCTATCAATGTTGCCACCAGAGATTGTGGGAGAAAAGATG
genomic: ATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaact ... tgtgttgtagTGTTGTCTACTTCTATCAATGTTGCCACCAGAGATTGTGGGAGAAAAGATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTGATTGCACTGCAGAAAGTTTAAAGgtacgtaactaacaacttaggtcataaacaacttaatctgaagctttattaatgatcgcaacaaatatatgttaatttaactaaacttcttgtgttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG