Sequence
atgc intronic sequence ATGC exonic sequence...tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
Basic information
species | Glycine max |
transcript | GLYMA17G02640.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 7
-----------------------------tgaaatctgaatcttattt---ccctttcattggtt-gcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgatatt-gcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| | | | | | || |||||| ||| |||| | | | | | | ||||| | |||| | | ||||| || |||||| ||||| || || || ||| |||| |||||||| | ||||||||||||||||| ||||||||||| |||||||||||||||||||| ||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattatgttggtttacatcctcaagcatttttttgcttttattctgataattcgt-tgat--gctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 7
-----------------------------tgaaatctgaatcttatt---tccctttcattggtt-gcatgtgt-aagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgatatt-gcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| | | | | | || |||||| ||| | |||| | | | | | | ||||| | |||| | | ||||| || |||||| ||||| || || || ||| |||| |||||||| | ||||||||||||||||| ||||||||||| |||||||||||||||||||| ||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattatgttggtttacattcctcaagcatttttttgcttttattctgataattcgt-tgat--gctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 7
-----------------------------------------------tgaaatctg-aatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaat---taatgtgat--ttgtttcttt--tgatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| | || | |||| | || |||| || | || || | | | |||| || ||| | || | || | || ||||||| |||||||| ||||| ||| ||||||||||||| | ||||||||||||||||| |||||||| ||||||||||| ||||| |||||||| || ||||
gtatgttagcaccaccttgtcacattaattctacattgctacctatgcaaattttgtactctttctaatctaattatggtaatttgcttcagtatacatttcttcaagttcaagttatgtccaattttatcaccactgacttgattatgctgcagAATAATCTTCATGAACTTTGGTCTCTTCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAGACTTTTGATGATTGGTTCCAAATCTCAGGGGAAA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 7
----------------------tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataa---tgttaatacacttaagtaattaatgtgatttgtttct-------tttg-----atattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| || | | || || || ||| | | | ||| |||| || | ||| || | | || || |||| |||| | || |||||| ||||| || || ||||||||||| ||||| || | | |||||||||||||| ||||| ||||| |||||||||||||||||||| ||||| ||||
gtaggcttctgccagtattgtttgttatatagtgtgtgcacccagaacaatgattgagtaccgattcagtaaccgtgttgtgtcatattagtttttggtttaatctgattctagtccggtttgctgctacatggcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTCCCTGAAATATTTAGCTCTGCGGAAACCTTTGATGAATGGTTTCAAATTTCTGGGGAAA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 4
---------------------------------------------tgaaatctgaatcttatttccctttcattggttgcat-gtgtaagcgataatgtt-aatacacttaagtaattaatgtgatttgtttcttttgatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| || || | | || |||| | | | ||| | || | || | | | | || | ||||||| | || | || |||||| ||||| || || ||||||||||| ||||| || | | |||||||||||||| ||||| || || |||||||||||||||||||| ||||| ||||
gtaggcttctcttgccactatttgtttttatataatgcgtgcacctggaacaatgatttaggtaccacttcagtaaccgtgttgtgccatatttattttttggtttaatctgatc-ctagtctgatttgctgct----acatggcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTACCTGAAATATTTAGCTCTGCGGAGACCTTTGATGAATGGTTTCAAATATCTGGGGAAA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------------------------------------------------------------tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgat---aatgttaat------acacttaagtaat-taatgtgatttgtttcttttgatat-tgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| | | ||| || | || | | |||| | | || | ||| || | | | ||| | ||| | || | | |||| ||||||| ||||| || ||||| ||||||||||| || |||||| ||||||| || |||||||| || || ||||||||||||||||||||||| |||||||| |
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgat---attgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| | | | | | |||| | | | | | || | || || ||| ||| | || ||| ||| |||| | || | | | ||||| ||||| || ||| | ||||| |||||||| |||||| | ||||| | |||||||| || ||||||||||| || ||||||||||| ||||||||||
-ttttttttcttttcgtgttccttagacatgcttcttac-tatcttctgtacttgatttgcttgagttaatattgt-attcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 7
tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgatat-tgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
| | || | || | ||| | ||| || | || | | || | | | | || | ||||||| ||| |||||||||||||||| ||||| ||| |||||||||||||||| |||| || ||||||| ||| ||||| ||||||||||||||||| ||||| ||||| || |
-actctttatatatacacatactcttatttgcctatccaataaaaataaaaatgaaaatggtgtagcatgtgacatccttgctatcttttgctatgtgcagAACAATCTTCATGAACTATGGTCTCTTCTCAACTTTCTACTGCCCGAGATATTTAATTCAGCTGAGACTTTTGATGAATGGTTCCAAATTTCTGGAGATA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 6
tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| |||| | || | | | | || | |||| | ||||||||||| ||||| | ||||||||||| |||||||| |||| || || || || ||||||||||| || || |||||||||||||| ||||| ||||
-----------------------------------------------gtattttaaaaggtttcttaagctgaacctaattcactgaactgat-tgacagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAA
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ32950 (Selaginella moellendorffii), 3'ss of exon 6
tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
|| |||| | || | | | | || | ||| | ||||||||||| ||||| | ||||||||||| |||||||| |||| || || || || ||||||||||| || || |||||||||||||| ||||| ||||
-----------------------------------------------gtattttaaaaggtttcttaagctgaacctaattcactgaaccgat-tgacagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAAMapped 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|207804346|gb|GD775895.1|GD775895EST: GGCTATACAATACAAACTATCGACTCCTCATAACTGGCACACCATTACAG AACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTT
genomic: GGCTATACAATACAAACTATCGACTCCTCATAACTGGCACACCATTACAGgtataacttg ... gatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gataatgttaatacacttaagtaattaatgtgatttgtttcttttgatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
tttcttttg CT-rich tract
ttaatacacttaagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgatattgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
- - - - - - - - - -ccctttc
- - - - - - - - - - - - - - - - tgcatgt