Sequence
atgc intronic sequence ATGC exonic sequence...agtggtaatgaattttctttttgtcaactgttttaagtattaagtaatgcatgcatcgtctccctttcattcactgtttgctccttttaaatgttttcagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCAAGATTCCCTCAGGTCTTTTCAATACAATGTTTGAATTTTCTGGGAGTTGGCAAAGAGATG
Basic information
species | Glycine max |
transcript | GLYMA12G28780.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G28780.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os07g07194.2 (Oryza sativa), 3'ss of exon 2
agtggtaatgaattttctttttgtcaactgttttaagtattaagtaatgcatgcatcgtctccctttcat-tcactgtt--tgctccttttaaatgtttt-cagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCAAGATTCCCTCAGGTCTTTTCAATACAATGTTTGAATTTTCTGGGAGTTGGCAAAGAGATG
| | | | | || | | | | | ||||||| | || | |||| | || | |||| || | | || |||| |||||||| ||||||||||| ||||| ||||||||| |||| || ||||| || ||| | |||||||| |||||||||||| |||| | ||||| | |||||
-ttcctcttcagctgtcat---ggaagccgctttaagtcgcagagtataattacatctataaaaggtaatatttgtgttcctgaagttgtgaagcattttgcagATGTCGGAGCAATTCAACCAGGAATTATCTTTGTCTGGGAAAATTCCATCTGGTTTATTCAATACTATGTTTGAATTTACTGGCTGCTGGCAGAAAGATG
upper sequence: GLYMA12G28780.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G435034_T01 (Zea mays), 3'ss of exon 1
-----------agtggtaatgaattttctttttgtcaactgttttaagtattaagtaatgcatgcatcgtctccctttcattcactgtttgctccttttaaatgttttcagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCAAGATTCCCTCAGGTCTTTTCAATACAATGTTTGAATTTTCTGGGAGTTGGCAAAGAGATG
|| || | | | | | ||| ||||| | | | || || || | | | |||||| | | | || |||||||||||| ||||||||||| |||||| |||| ||| |||| || ||||| || || | |||||||| |||||||| |||||||| || ||||| | |||||
gcatctacatccatgaaaactattagtgctcatatcatgtgtttacaatgctgagaaaagccag--ttagccacctttctcaaattatga---------aacatttttcagATGTCTGAGCAATTCAACCAGGAGCTATCATTGTCTGGGAAAATTCCATCTGGCTTCTTCAATACTATGTTTGAGTTTTCTGGCAGCTGGCAGAAAGATG
upper sequence: GLYMA12G28780.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G24290.2 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------------------------------------agtggtaatgaattttctttttgtcaactgttttaagtattaagtaatgcatgcatcgtctc-----cctt--tcattcactgtttgct----ccttttaaatgtttt--cagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCAAGATTCCCTCAGGTCTTTTCAATACAATGTTTGAATTTTCTGGGAGTTGGCAAAGAGATG
|| | || | |||| | ||| | |||| || | ||| | | | | | |||| | ||| || |||| | ||| ||| ||| ||||| ||||||| ||||| ||||| |||||||| |||| || || || |||||||| |||||| | ||||||||||| || | ||||||| | ||| |
gtaacttttcgttgaaaagtattggtttgtgttgttgtaggttttgagtggataagatcgccatctgttgaagcctttatctagtttcct--tgtacattgttctagagagtaaatttccttcatagcattttggatgccttagttattaacattttgttaacatttttcttatggtttgctagATGGCAGAGCAGTTCAACCAGGAACTATCTTTGGCTGGGAAAATCCCGTCAGGTCTCTTCAATGCCATGTTTGAATTCTCGAGCTGTTGGCAGAAAGACG
upper sequence: GLYMA12G28780.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0035g01040.t01 (Vitis vinifera), 3'ss of exon 2
agtggtaatgaattttctttttgtcaactgttttaagtattaagtaatgcatgcatcgtctccc--tttcattcactgtttgctccttttaaatgttttcagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCAAGATTCCCTCAGGTCTTTTCAATACAATGTTTGAATTTTCTGGGAGTTGGCAAAGAGATG
| || | | || || | | | |||| | | || | || | || | |||| | | | |||| | | |||||||||||||||||||| |||||| |||| |||||||| || ||||| ||||| || |||||| | |||||||||||||| || ||||||| | |||||
--ttgttttacagttaattctaggacaatgttgatgctgtagcatattaaattcctctttcattgatttcgggtgcattgatatttctttactttgctccagATGTCAGAGCAATTCAACCAGGAGATATCCTTGACTGGTAAAATTCCATCAGGCCTCTTCAATGCTATGTTTGAATTTTCAGGCTGTTGGCAGAAAGATGMapped 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|213610342|gb|DB962956.1|DB962956EST: ATAAAGGGGAACGCATACGGTTCAGGTCCGATGTTCTGTCTTTTCAACAG ATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCA
genomic: ATAAAGGGGAACGCATACGGTTCAGGTCCGATGTTCTGTCTTTTCAACAGgtaaactttc ... atgttttcagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgcatgcatcgtctccctttcattcactgtttgctccttttaaatgttttcagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCAAGATTCCCTCAGGTCTTTTCAATACAATGTTTGAATTTTCTGGGAGTTGGCAAAGAGATG
tgttttc CT-rich tract
ttttaaatgttttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtggtaatgaattttctttttgtcaactgttttaagtattaagtaatgcatgcatcgtctccctttcattcactgtttgctccttttaaatgttttcagATGTCAGAGCAATTCAATCAGGAGTTATCTTTGACTGGCAAGATTCCCTCAGGTCTTTTCAATACAATGTTTGAATTTTCTGGGAGTTGGCAAAGAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - caactgt
- - - - - - - - - - - - - - - - - - - - - - - - gcatgca