Sequence
atgc intronic sequence ATGC exonic sequence...tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
Basic information
species | Glycine max |
transcript | GLYMA15G10370.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 7
----------------tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatca-------------cttttattggca----cagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| | | ||| || | | | | | | || | ||| || | ||||||||| |||| | | | |||| | | || | |||| |||||||| || ||||| || |||||||| |||||||| | |||| ||||| ||||| ||||||||||| |||||||||||||||||||| ||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattat--gttggtttacatcctcaagcatttttttgcttttattctgataattcgttgatgctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 7
----------------tgcttttctaccttgttttgaaatcttaatta--ttttttttgtttgtttgtat-------gcatcctcaaatatttact---agtgtctattatcacttttattggca----cagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| | | ||| || | | | | | | || |||| |||| || |||| | |||| | | | || || | |||| |||||||| || ||||| || |||||||| |||||||| | |||| ||||| ||||| ||||||||||| |||||||||||||||||||| ||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattatgttggtttacattcctcaagcatttttttgcttttattctgataattcgttgatgctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 7
------------------------------------------------tgcttttctaccttgttt--tgaaatcttaattattt-tttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatcact---tttat--tggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|||| ||| | | | | ||| | | |||| || || | | | | || |||| | | | | | | ||| | |||| || || || |||||||| ||||||||||| ||||||||||||||||| | |||| ||||| ||||| |||||||| ||||||||||| ||||| |||||||| || ||||
gtatgttagcaccaccttgtcacattaattctacattgctacctatgcaaattttgtactctttctaatctaattatggtaatttgcttcagtatacatttcttcaagttcaagttatgtccaat-tttatcaccactgacttgattatgctgcagAATAATCTTCATGAACTTTGGTCTCTTCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAGACTTTTGATGATTGGTTCCAAATCTCAGGGGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 7
------------------------------------tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaat--atttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
||| | | |||| | | | | | |||| | ||| | | | || | | | | || || | |||||||| || ||||| |||||| |||| ||||| || | || || ||||| ||||| ||||| ||||| |||||||||||||||||||| ||||| ||||
gtaggcttctgccagtattgtttgttatatagtgtgtgcacccagaacaatgattgagtaccgattcagtaaccgtgttgtgtcatattagtttttggtttaatctgattctagtccggtttgctgctacatg-gcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTCCCTGAAATATTTAGCTCTGCGGAAACCTTTGATGAATGGTTTCAAATTTCTGGGGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 4
----------------------tgcttttctaccttgt-----tttgaaatcttaatt---attttttttgtttgtttgtatgcatcctcaaatatttactagt---gtctattatcacttttattggc---------acagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| |||| || || || || | ||| | || | || | || | ||||| | || ||| | | | | ||| || |||||||| || ||||| |||||| |||| ||||| || | || || ||||| ||||| ||||| || || |||||||||||||||||||| ||||| ||||
gtaggcttctcttgccactatttgtttttatataatgcgtgcacctggaacaatgatttaggtaccacttcagtaaccgtgttgtgccatatttattttttggtttaatctgatcctagtctgatttgctgctacatggcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTACCTGAAATATTTAGCTCTGCGGAGACCTTTGATGAATGGTTTCAAATATCTGGGGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------------------------------------------------------tgcttttctaccttgttttgaaatcttaattattttttttgt-----ttgtttgtatgcatcctcaaatattta------ctagtgt-ctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| ||| | || |||| | |||||| | || |||| | || ||| | | | ||| | || ||| || ||| | || |||||||| || |||||||| ||| ||||||| || ||||||||||| || ||||||||||| || || ||||||||||||||||||||||| |||||||| |
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
--tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| ||| | | |||| | | | || || | | | ||| | | || | | || | || | ||| | || | ||||||||| || |||||| | ||| | |||||||| |||||||| || || |||||||||| || ||||||||||| || ||||||||||| ||||||||||
ttttttttcttttcgtgttccttagacatgcttcttactatcttctgtacttg-atttgcttgagttaatatt-gtattcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 7
tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgc-atcctcaaatatttactagtgtctattatcacttttattg-gcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| | || | | ||||| || | | | | | | | || | || | | ||||| | | ||||| || ||||||||||| |||||||||||||||||||| |||||||| || |||| ||| ||||| ||||||||||||||||| ||||| ||||| || |
--actctttatatatacacatactcttatttgcctatccaataaaaataaaaatgaaaatggtgtagcatgtgacatccttgctatcttttgctatgtgcagAACAATCTTCATGAACTATGGTCTCTTCTCAACTTTCTACTGCCCGAGATATTTAATTCAGCTGAGACTTTTGATGAATGGTTCCAAATTTCTGGAGATA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ06565 (Selaginella moellendorffii), 3'ss of exon 7
tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| | || || || ||| || | | ||| || || | | || |||||| ||||||| ||||| || || || ||| | || | || ||||| ||||||||||| ||||| |||||||| || ||||| || |||||||| || ||||| ||||
-------------------------gtacaagatagttgtgaacgtgcttatttattttaccctttttccttgttt----tcccatttttat-accacagAACAACCTGCACGAGCTGTGGGCGCTCTTGAATTTTCTCCTGCCCGAAATCTTTAGCTCTGCTGAGACCTTTGACGAGTGGTTTCAGATTTCTGGAGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 6
tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactag--tgtctattatcacttttattggc--acagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| || | ||| ||| || || | || | | || |||||| || || || || | ||| ||||||| |||||||| ||||| || ||||| || ||||||||||| || || |||||||||||||| ||||| ||||
----------------------------------------------------gtattttaaaaggtttcttaagctgaacctaattcactgaactgattgacagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ31365 (Selaginella moellendorffii), 3'ss of exon 7
tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| | || | | | | || ||| || || | | || || | || || |||||| ||||||| ||||| || || || ||| | || | || ||||| ||||||||||| ||||| |||||||| || ||||| || |||||||| || ||||| ||||
---------------gtacaagatagttgtgaacgtgcttattttattttactctttttc-----cttgtt--------ttcccatttttat-accacagAACAACCTGCACGAGCTGTGGGCGCTCTTGAATTTTCTCCTGCCCGAAATCTTTAGCTCTGCTGAGACCTTTGACGAGTGGTTTCAGATTTCTGGAGAAA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ32950 (Selaginella moellendorffii), 3'ss of exon 6
tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactag--tgtctattatcacttttattggc--acagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| || | ||| ||| || || | || | | | |||||| || || || || | ||| ||||||| |||||||| ||||| || ||||| || ||||||||||| || || |||||||||||||| ||||| ||||
----------------------------------------------------gtattttaaaaggtttcttaagctgaacctaattcactgaaccgattgacagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAAMapped 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|208269002|gb|GE068597.1|GE068597EST: GGCTCTACAGTACAAACTATCGTCTCCTTATTACTGGCACACCACTTCAG AATAATCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAAT
genomic: GGCTCTACAGTACAAACTACCGTCTCCTTATTACTGGCACGCCACTTCAGgtatgacttg ... attggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtatgcatcctcaaatatttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
cttttatt CT-rich tract
tattatcacttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
tgctttt
- - - - taccttg
- - - - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - gtatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtcta