Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
Basic information
species | Glycine max |
transcript | GLYMA06G09320.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g09570.1 (Oryza sativa), 3'ss of exon 6
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
|| | | || || | ||| |||| || | | || ||| || | ||| | ||| |||| || ||||| || ||||||||||| |||||||| ||||||||||| | ||||| ||||| ||||||||||| ||||| ||| |||||||||||||
---------------------------------------------gtactttcttctttccagcacacttga-gtttggattttcttcatgctaatcgctaagattgatgttgaattgtttgcacagGTGATCGACAAGTCCTTTGGTTTTGACACTGCGGTGGAGGAGGCTCAGAGGGCCATCAATGCTGCTCATGTTGAGGCTGAGAGTGCAGAGAATGGCATTG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
| || | | || ||||| | | || || | |||| | | | | ||| | | || || | | | | |||| ||||||| ||| |||||||| || ||||| ||||||||||| |||||||| || ||||| |||||||| ||||||| ||| |||||||| || |
---------------------------------------gtaatgatctttttcacattatattgacattagggtatgaattat----ggtgtatatgcataatttgttt--ctaccctatgtgcagGTAATTGACAGATCATTTGGTTTCGACACTGCAGTTGAGGAGGCCCAACGTGCAATAAATGCTGCTCATGTAGAAGCTGGAAGCGCCGAGAATGGTATAG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g53680.1 (Oryza sativa), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaa---gtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
| || | || || | ||| || | |||| || | ||||| || | ||||| | || ||||| || || | | || || | || ||||||| ||||| || ||||||||||||| ||| || || ||||| || ||||||||| |||||||||||||||| ||| |||| ||||||||| || |
-----gtaatttatgattaca-agcgtttatttttgcctgcaaaga-------agcattacaactcttttgatactgcacaatttttctattaaagaagtactgattttttctgtacattaaaactc-agGTTATAGACAAGTCCTTTGGTTTTGATAGTGCTGTAGAAGAGGCCCAGCGTGCCATTGATGCAGCTCATGTTGAGGCTTCAAGTGCTGAGAATGGAATAG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g44922.2 (Oryza sativa), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggtt-atctatgaaga-aacttcatgttcggattgccttcttttt---ctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
|||| || || || || | | | || | | ||| | || | | || | || | || |||| || || | |||| || | || |||| || || |||| | |||||||| || |||||||||||||| || || || ||||| || ||||||||| || |||||||||| |||||| ||| ||||||||| || |
gtatttttttt----gtgcgatgtgtct-atttttgtgtagaaat------ttgttgtacgcatgctgttcagttgacggttcatacgagattatgacttattgcttatgttacctttttcttgattcttagATCATTGACAAGTCATTTGGTTTTGATACGGCCGTAGAAGAGGCCCAGCGTGCCATTGATTCAGCTCATGTGGAAGCTTGCAGTGCTGAGAATGGAATAG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G879882_T01 (Zea mays), 3'ss of exon 1
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgcct---tctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG------------------------------
||| | | | | |||| | | | | | ||||||||| ||||| || ||||||||||||||||| || || || || || ||||||||||||||||||||||| |||||| |||| ||| ||||| || |
--------------------------------------------------------------------------------------gcagagacctgtactatgctgattatttgtatatatatggttaggttatagacaagtcatttggttttgatactgctgtagaagaagcccagcgtgccatTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAGGTTTAGTGAAGCTTATGGGTCGCTATAGTG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttc--atgttcggattgcct---tctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
| || || | | || || || || | | | | || | | | | | |||| || | || ||| || | | | | |||| | | | | | ||||||||| ||||| || ||||||||||||||||| || || || || || ||||||||||||||||||||||| |||||| |||| ||| ||||| || |
--gtaatttttggccacttc-tacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G816636_T02 (Zea mays), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatt-tgaagtgttggttatctatgaagaaacttcatgttcggattgccttct---ttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
|| |||| ||| ||| | | | || | | | ||||| | ||| | | | | | | || || | | || | | || |||| |||||||| || |||||||| || || || |||||||||||||||||||| || ||||| |||||||| ||||||| |||| ||||||||| || |
-----------------gtaatatgtttc--tccacattttagtgatattttggtggaaaaaatggaagatgacatttgacatgatcacatgaaccttgtgtgcacgaactcactgttacccatgtttcagGTAATTGACAAGTCATTTGGTTTCGACACAGCAGTTGAGGAGGCTCAACGTGCAATAAATGCTGCTCATGTGGAAGCTGTAAGTGCTGAGAATGGTATAG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G443985_T03 (Zea mays), 3'ss of exon 8
gtatgcttgttcacaatgtcatatttttt-gttcctccctggaactctaatcttatcatt-aaaatac-atttgaagtgttggttatctatgaagaaactt-catgttcggattgcc---ttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
| || ||| | | || | | | | | | || || || | |||||| || | || | | ||| | ||| | ||| | | | | || |||| |||||||| || |||||||| || || || || ||||||||||||||||| || ||||| |||||||| || |||| |||| ||||||||| || |
---------------gtaatatgtttctccacattttagtgacatttttgtgtaaaaatggaagatgccatttgacatgatcac-atgaacaacgaaccccatatgcgtgaattcaccgttacccatgtttcagGTAATTGACAAGTCATTTGGTTTCGACACAGCAGTCGAGGAGGCTCAACGTGCAATAAATGCTGCTCATGTGGAGGCTGTAAGTGCTGAGAATGGTATAG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G004932_T01 (Zea mays), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
||| | | | | | | | | || || || || | ||| | | | || | ||| || | | | || || ||||| | || ||||| ||||||||||||||||| || || || ||||| || ||||||||| || |||||||||| |||||| ||| ||||||||| || |
------------gtaatattctgcaagatatgtttactttctattcaaaagccgtctctaca-taccccattaatat-ggccactcatgtg--aatgtgacacacaaatc-----tattgattttagATCATCGACAAGTCTTTTGGTTTTGATACGGCTGTGGAAGAGGCCCAGCGTGCCATTGATTCAGCTCATGTGGAAGCTTGCAGTGCTGAGAATGGAATAG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G32840.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
|| | || | || | || | ||| | | |||| | | | | | |||||| | ||||| || || | ||| | | | | | ||||| |||||||| || ||||| |||||||||||||||||||||||||||||||| ||||||||||| ||||||||||| ||| | || || |||||||
------------gtaagtcctagattatcattattgt---agtctgcactctcaaccttaacctcc-tctcctattctggttagttcgcaagaagctcaatttgatgatag--tatctctgatctagGTCATTGACAAGTCCTTTGGATTTGATACTGCGGTTGAGGAGGCTCAACGTGCTATTAATGCAGCGCATGTTGAAGCGACCAGTGTGGAAAACGGCATTG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 8
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
| ||| || | || || | || | | ||| | || ||| |||| | || | || | || | | | ||||| | || |||||||| || || |||||||||||||||| ||||||||||||||||| ||||| || || || |||||||||||||| || ||||||||| ||||||||||||||||||| ||||
--gtacttcttgcctattgcacctgaattaattttgttcttttctccatctttttcaataaa---cctt----gcattagc---ctgtaatgtgtcttcac-cttagactgccttctcttgattcagGTTATTGACAAATCGTTTGGTTTTGATACTGCTGTTGAAGAAGCACAGCGTGCCATTAATGCGGCACATGTTGAATCTGAAAGTATTGAGAATGGTATTG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S131_40V6.1 (Physcomitrella patens), 3'ss of exon 8
----------------------------------------------------------------gtatgct--tgttcacaatgtcatattttttgttcctccctggaactctaatcttatcat-taaaatacatttgaagtgttggttatctatgaagaaacttcatgttcg--gattgccttctttttctt--tagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
| | ||| | || | | | || || | | || | || || || | ||||||| || | | || | ||| || | || || | ||| | |||| || || || || || || |||||||| || || || || ||||| ||||| || |||||||||||||| |||||||| ||| || ||||||| |||
gtacgtcactgtcttttgatatacacttggtaggattacgtgcggtagaagtaactaagtttcaggaagctaatatttggatacgtgtgtgcgcaaagactaccagatgacatgat-taattatgtattgttttcttgaagtccaagtgtgccaccgtctaa-tgcatatttgtcgaatgtggtatttgaggtaacagGTCATAGATAAGTCATTCGGATTTGATACAGCAGTGGAAGAAGCTCAGCGTGCAATCAATGCAGCTCATGTGGAAGCTGAGAGTGTTCAGAATGGTCTTG
upper sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S81_165V6.4 (Physcomitrella patens), 3'ss of exon 9
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatt---tgaagtgttggttatctatgaagaaacttcatgttcggattgcc-------ttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
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gtacgttt-tagaca----cggaaattcaacaacacgatggaattctctgtttttcaatggattgaattgtgtgggtttctgattgtaggttaagcaacacaagagctgaatggaaaatatggtgcacgtttggcagGTCATAGACAAATCATTTGGTTTTGATACCGCAGTTGAAGAAGCACAGCGTGCAATTAATGCTGCGCACGTGGAAGCTGAGAGTGTTCATAATGGCATTGMapped 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|193721856|gb|FK659432.1|FK659432EST: TGAAAGTAGCAATTGCTGGAATTCCTAAAACCATAGACAATGACATCCCG GTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGT
genomic: TGAAAGTAGCAATTGCTGGAATTCCTAAAACCATAGACAATGACATCCCGgtatgcttgt ... ttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGT
EST:
gi|207822613|gb|GD795682.1|GD795682EST: TGAAAGTAGCAATTGCTGGAATTCCTAAAACCATAGACAATGACATCCCG GTTATTGACAAATCTTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACG
genomic: TGAAAGTAGCAATTGCTGGAATTCCTAAAACCATAGACAATGACATCCCGgtatgcttgt ... ttttctttagGTTATTGACAAATCTTTT-GGTTTTGATACTGCGGTTGAGGAGGCTCAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
ttgccttctttttctt CT-rich tract
tttttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttcatgttcggattgccttctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA