Sequence
atgc intronic sequence ATGC exonic sequencegtacatccatttgccttgcctactactattcaatattcctacattttgattatttatgaatgaattattgcagAGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATTCTTTCCATTGTTCCTGTATTTCTAAATGGGCAGATTCTTCTTGTCCT
Basic information
species | Glycine max |
transcript | GLYMA15G00770.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G00770.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g09060.1 (Oryza sativa), 3'ss of exon 4
---------------gtacatccatttgccttgccta---ctactattcaatattcctac--attttgat-----tatttat--gaatgaattattg-cagAGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATTCTTTCCATTGTTCCTGTATTTCTAAATGGGCAGATTCTTCTTGTCCT
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accaggagtagttttctatatttact-atcttatttaagcccaaagtatagctttcgaactcacattgatcacaccatttatttgtttttattgtcaatagAACGACTTGACCAAGATCCTGGAGGCATTCTTACAACAATATGCAACCATTCTTTCCACTATTCGTGCATGTCAAAGTGGGCAGACTCTTCGTGCCCA
upper sequence: GLYMA15G00770.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G26000.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------------------------------------gtacatccatttgccttgcctactactattcaatattc-ctacattttgattatttatgaatgaat-----tattgcagAGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATTCTTTCCATTGTTCCTGTATTTCTAAATGGGCAGATTCTTCTTGTCCT
|| ||| | | || || | | ||||| ||| ||| | | ||| ||| || | || ||||| |||| || || ||||| ||||| ||||| ||||| || ||||| ||||| |||||||| || ||||||||||| ||| ||||||||||||| ||
gtaaattcttaacctgaattattaaaatatatgcagaaatatggcttagtctagctctagaaagtgtaggcataggtattgatattaagattgacagtatct-ctggtgtcatatattgactatgtttggtcggtatattaatatatgctcatgtttcagAGAGATTGGACCAAGACACAGGTGGCATTCTCACAACCATGTGCAATCATTCCTTCCATTGCTCATGTATTTCTAATTGGCCAGATTCTTCTTGCCCA
upper sequence: GLYMA15G00770.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s0125g00250.t01 (Vitis vinifera), 3'ss of exon 4
-----------gtacatccatttgccttgcc-tact-actattcaatattcctac--attt-----------tgattatttatgaatgaat-tattgcagAGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATTCTTTCCATTGTTCCTGTATTTCTAAATGGGCAGATTCTTCTTGTCCT
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tgatggtcccttttgtttcatttcccttattatactcatcaaaaaataaacttgcttatttaggatttgagctgatcttatttgtaccaacatattgtagAAAGACTAGACCAAGACATCAGTGGGATTCTTACTACTATATGCAATCATTCCTTCCACTGCTCTTGTATATCAAAATGGACAGATTCTTCTTGTCCGMapped 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|24136317|gb|BU926827.1|BU926827EST: CTACTTCAACTGAACTGCCTACTTGTCCTGTTTGCCTTG AGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATT
genomic: CTACTTCAACTGAACTGCCTACTTGTCCTGTTTGCCTTGgtacatccat ... attattgcagAGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctactactattcaatattcctacattttgattatttatgaatgaattattgcagAGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATTCTTTCCATTGTTCCTGTATTTCTAAATGGGCAGATTCTTCTTGTCCT
ttttgat putative branch site (score: 4)
tacattttgattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatccatttgccttgcctactactattcaatattcctacattttgattatttatgaatgaattattgcagAGCGATTAGATCAGGACACCGGTGGAATTCTTACAACTATATGCAACCATTCTTTCCATTGTTCCTGTATTTCTAAATGGGCAGATTCTTCTTGTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT