Sequence
atgc intronic sequence ATGC exonic sequence...gtgatttgatgactttcagtttactttgtcactttttaaagttaaccaatagctttgcttatgtatatcttaatcctttctactatttgattacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTGAGGATTATGTTCATCGCATTGGGCGGACAGGGAGAGCTGGTGCAAAAGG
Basic information
species | Glycine max |
transcript | GLYMA07G01260.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01260.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g10050.1 (Oryza sativa), 3'ss of exon 8
gtgatttgatgactttcagtttactttgtcactttttaaagttaaccaat-agctttgcttatgtatatcttaatcctttctactatttgattacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTGAGGATTATGTTCATCGCATTGGGCGGACAGGGAGAGCTGGTGCAAAAGG
|| | | | | | ||| | ||| || |||| | |||| | || ||| || || |||||| |||||||| |||||||| || || |||||||| ||||| ||| | ||||||||||||||||||||||| || || || |||||||| ||||||||
--------------------gtatacaaaaatcctcccagatcgatgaattatatttatttctgtaaac--taatgccactta-tatctggaaac----agATGTTAAGGATGTTAAATATGTCATTAACTATGACTTTCCGGGATCATTGGAGGATTATGTTCATCGCATTGGTCGAACTGGCAGAGCTGGAGCAAAAGG
upper sequence: GLYMA07G01260.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G143246_T01 (Zea mays), 3'ss of exon 8
gtgatttgatgactttcagtttactttgtcactttttaaagttaaccaatagctttgcttatgtatatcttaatcctttctactatttgattacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTGAGGATTATGTTCATCGCATTGGGCGGACAGGGAGAGCTGGTGCAAAAGG
| || ||| | | | | || | | || | || || | | || | | ||||||| ||||||||||| ||||| || || |||||||| ||||||||||| ||||||||||||||||| || || || || || ||||| |||||||||||
----------------------gtatgcccaactttgagatgtgatacatcttatatttcctgaggaaattgatacacgtttctttcccttggaaaacagATGTCAAGGATGTGAAGTATGTCATTAACTATGACTTTCCGGGGTCACTCGAGGATTATGTTCATCGTATAGGTCGAACTGGCAGAGCAGGTGCAAAAGG
upper sequence: GLYMA07G01260.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G55150.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgatttgatgactttcagtttactttgtcactttttaaagttaaccaatagctttgcttatgt--atatcttaatcctttctactatttgattacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTGAGGATTATGTTCATCGCATTGGGCGGACAGGGAGAGCTGGTGCAAAAGG
| | | ||| ||| | | ||| || ||| | | ||| | | || |||| || | |||| ||||| |||||||| ||||| ||||| ||||||||||| || ||||| |||||||||||||| | ||||| || ||||| ||||| || || |||||
------------gtactaaatctttttctcatctgcgtgcaaacatcaactctcttaaccatggtgacaagctaa-caacagttctttttg-ttttgaacagACGTGAAAGATGTGAAGTATGTGATAAACTATGACTTCCCTGGATCACTGGAGGATTATGTTCACAGGATTGGACGAACAGGTAGAGCCGGGGCTAAAGG
upper sequence: GLYMA07G01260.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 8
gtgatttgat--gactttcagtttactttgtcactttttaaagttaaccaatagctttgcttatgtatatcttaatcctttctactatttgattacggt--cagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTGAGGATTATGTTCATCGCATTGGGCGGACAGGGAGAGCTGGTGCAAAAGG
||| || | | | || | | | | | || ||| | || | |||| | | | || | || ||| ||||||| ||||||||||||| ||| || || |||||||||||||| || ||||| |||||||| || |||||||| || ||||| || ||||| || |||||
-tgacatggctaaattcttgaaaggaagtgagagcatgtccacccag--gatgacttcaaaagc-tgcatttcaatcttcttacatgttaggttttggttgcagATGTCAAGGATGTGAAATTTGTGATCAACTATGACTTCCCGGGATCTCTTGAAGATTATGTCCACCGCATTGGTCGAACAGGAAGGGCTGGGGCCAAAGGMapped 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|208192235|gb|GD990181.1|GD990181EST: AGGCAAAAGTCCTATTATGACGGCAACAGATGTTGCAGCCCGTGGTCTAG ATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTG
genomic: AGGCAAAAGTCCTATTATGACGGCAACAGATGTTGCAGCCCGTGGTCTAGgtgcaaaaac ... ttacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTG
EST:
gi|58018178|gb|CX704920.1|CX704920EST: AGGCAAAAGTCCTATTATGACGGCAACAGATGTTGCAGCCCGTGGTCTAG ATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTG
genomic: AGGCAAAAGTCCTATTATGACGGCAACAGATGTTGCAGCCCGTGGTCTAGgtgcaaaaac ... ttacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaatagctttgcttatgtatatcttaatcctttctactatttgattacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTGAGGATTATGTTCATCGCATTGGGCGGACAGGGAGAGCTGGTGCAAAAGG
ttatgtatatcttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatttgatgactttcagtttactttgtcactttttaaagttaaccaatagctttgcttatgtatatcttaatcctttctactatttgattacggtcagATGTGAAGGATGTGAAATATGTAATAAATTATGACTTCCCGGGGTCACTTGAGGATTATGTTCATCGCATTGGGCGGACAGGGAGAGCTGGTGCAAAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - tgatgac
- - - - - - - - - - - - - tgtcact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttatg