Sequence
atgc intronic sequence ATGC exonic sequence...attctcattgaagtaaataaattatgctaattcataattttcctgaattgaaattggttcaaattcttaatgtgccttggtgtgactaatggatatgcagATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTCTTCAATTGGTTGGTGGCCTTCTCCCTGGTTATGGTAGTGATTGGCCGCT
Basic information
species | Glycine max |
transcript | GLYMA02G16130.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os03g58240.1 (Oryza sativa), 3'ss of exon 15
------att-ctcattgaagtaaataaattat-gctaattcataattttcctgaattgaaattggttcaaattcttaatgtgccttggtgtgactaatggatatgcagATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTCTTCAATTGGTTGGTGGCCTTCTCCCTGGTTATGGTAGTGATTGGCCGCT
||| | | || | || | | | || ||| | | |||| || || | ||| ||| | || | ||| || | ||| |||||| | | |||||||| |||| ||||| |||||||||||| ||| |||||||||||||||||| |||||||||| || ||||| || ||||| ||||
tgatgtattacccctttttcttgtcaatctgcaggttgtttctaactcttgctaattatgat--attta---tctaaataaactctgatatga-tatcgcata--cagATGCTTGTCAAGTCTCGTGCTCTTTTTATCAAGGAGTACAATAACAAGCTCTTCAATTGGTTGGTAACCTTCTCCCTAGTCATGGTGGTTATTGGGCGCT
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G019361_T03 (Zea mays), 3'ss of exon 14
attctcattgaagtaaataaattatgctaattcataattttcctgaattgaaattggttcaaattcttaatgtgccttggtgtga--------ctaatgg-atatgcagATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTCTTCAATTGGTTGGTGGCCTTCTCCCTGGTTATGGTAGTGATTGGCCGCT
| | ||||| | | | || | ||| || ||| | ||| ||| | | ||| ||| | | | ||| | | ||||| | | |||||||| |||| || || |||||||||||| ||| ||| ||||||||||||||| ||||||| |||| ||||| || || || ||||
----ctactcaagtatgtgctctgt-----ttggttgcttttactctttaaaacttgttgtgatttgcatggagccatggactaagctccagtttgatgctgtgtttagATGCTTGCCAAGTCTCGTGCTCTTTTCATCAAGGAGTACAATAACAAGCTTTTCAATTGGTTGGTGACCTTCTCTTTGGTCATGGTGGTCATCGGGCGCT
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G321413_T01 (Zea mays), 3'ss of exon 8
attctcattgaagtaaataaattat--gctaattcataattttcctgaattgaaattggttcaaattcttaatgtgccttggtgtgactaatggatatgc--agATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTCTTCAATTGGTTGGTGGCCTTCTCCCTGGTTATGGTAGTGATTGGCCGCT
| | ||||| | | | | | | || | || | ||| | | || | ||| | | | | | | || ||||| | | |||||||| |||| || || |||||||||||| ||| ||| ||||||||||||||| ||||||| |||| ||||| || || || ||||
----ctactcaagtatgtgctctgtttggttgcttttactctttaaaacttgttgtggtttgcatggagccatggactaagctccagtttgatgctgtgtttagATGCTTGCCAAGTCTCGTGCTCTTTTCATCAAGGAGTACAATAACAAGCTTTTCAATTGGTTGGTGACCTTCTCTTTGGTCATGGTGGTCATCGGGCGCT
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv07s0141g00110.t01 (Vitis vinifera), 3'ss of exon 14
attctcattgaagtaaataaattatgctaattcataattttcctgaattgaaattggttcaaattcttaatgtgccttggtgtgacta-atggatatgcagATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTCTTCAATTGGTTGGTGGCCTTCTCCCTGGTTATGGTAGTGATTGGCCGCT
| || | | ||| || | | || || | ||||| | || | | | || | |||| || || || ||||||||||| ||||||||| ||||| ||||| |||||||| || |||||||||||||||||| |||||||||||||||| | ||||| ||| | ||||| |
-tgtccaaaagtgccattaatttttcattcatcttacatatcctgtctccttgttatgttccctcgattataactatgtttgtgcctgtataaatctgcagATGATGCAGAAGTCTCGATCTCTATTTATTAAGGAGTATAACCACAGGCTCTTCAATTGGCTGGTGGCCTTCTCCCTCTTCATGGTGGTGGTGGGCCGGTMapped 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|151402115|gb|EV271928.1|EV271928EST: GTGAATGTGTTGGACCTTCAAAAGCAAATTATGAGCAACGCATAATGAAG ATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTC
genomic: GTGAATGTGTTGGACCTTCAAAAGCAAATTATGAGCAACGCATAATGAAGgtctgattca ... ggatatgcagATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgaaattggttcaaattcttaatgtgccttggtgtgactaatggatatgcagATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTCTTCAATTGGTTGGTGGCCTTCTCCCTGGTTATGGTAGTGATTGGCCGCT
gactaat putative branch site (score: 2)
ttcaaattcttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctcattgaagtaaataaattatgctaattcataattttcctgaattgaaattggttcaaattcttaatgtgccttggtgtgactaatggatatgcagATGATGGGGAAGTCTCGGTCTCTGTTTATAAAGGAGTACAATCACAGGCTCTTCAATTGGTTGGTGGCCTTCTCCCTGGTTATGGTAGTGATTGGCCGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - aaataaa
- - - - - - - - - - - tatgcta
- - - - - - - - - - - - - - - - - - - - tcctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgtgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgtg