Sequence
atgc intronic sequence ATGC exonic sequencegtcagtacatatatatacattaattaaatattacatatacatttgaaaacaaacaattaattagtacgtactataaacacagactaattgattaattgggtggtgaaattgcaatttgtacagATGGATTACATACTAGGGAACAACCCTGAAGGAAGATCATACATGGTAGGATTTGGAAAGAACCCACCAACGCAAGCTCACCATAGAGGTGCTTCCGTTT
Basic information
species | Glycine max |
transcript | GLYMA06G05930.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G05930.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G43860.1 (Arabidopsis thaliana), 3'ss of exon 7
-----------------gtcagtacatatat-atacattaattaaatattacatatacatttgaaaacaaacaattaattagtacgtactataaacacagactaattgattaattgg-gtggtgaaattgca-atttgt-acagATGGATTACATACTAGGGAACAACCCTGAAGGAAGATCATACATGGTAGGATTTGGAAAGAACCCACCAACGCAAGCTCACCATAGAGGTGCTTCCGTTT
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gtattatatatttttccataagaatgcaaaccaaacatacacaaaatatt-tgtgttccttatttttcacata-tgagttatgaagttatatata-atgtgttagatatatacctaatgtgttatcattatatgcatgttacagATTGACTACATACTAGGGCATAACCCACAAGGAAGATCGTACATGGTTGGGTTCGGACCAAACCCACCAAAGCAAGCCCATCACAGAGGAGCCTCAGTGC
upper sequence: GLYMA06G05930.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g02020.t01 (Vitis vinifera), 3'ss of exon 7
gtcagtacatatatatacattaattaaatattacatatacatttgaaaacaaacaattaattagtacgtactataaacacagactaattgattaattgggtggtgaaattgcaatttgtacagATGGATTACATACTAGGGAACAACCCTGAAGGAAGATCATACATGGTAGGATTTGGAAAGAACCCACCAACGCAAGCTCACCATAGAGGTGCTTCCGTTT
| | | | | | ||| |||| | || |||||| | | | | |||||||| | || | | || ||| ||| ||||||| | |||||||| ||||||||| ||||||| || ||||| |||||||||||||||||||| ||||||||||| ||||| ||||| ||||| |||||||| || || || |||
-----aaaaaaaaaaaatgtta--taaaagtgac-tatacaactaacatttttc--ttaattagaaggtttttt--tcatggac--attaattaatttttaaataaaattgca---------gATGGATTATTTACTAGGAAAAAACCCGGAAGGAAGATCATACATGGTTGGATTTGGAAACAACCCCCCAACACAAGCACACCATAGGGGAGCCTCAGTTC
upper sequence: GLYMA06G05930.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g02010.t01 (Vitis vinifera), 3'ss of exon 7
gtcagtacatatatatacattaattaaatattacatatacatttgaaaacaaacaattaattagtacgtactataaacacagactaattgattaattgggtggtgaaattgcaatttgt-acagATGGATTACATACTAGGGAACAACCCTGAAGGAAGATCATACATGGTAGGATTTGGAAAGAACCCACCAACGCAAGCTCACCATAGAGGTGCTTCCGTTT
|| ||||| || |||| | ||| | | | | || | | || | | ||||| | ||| || | |||||| ||||||||||| ||||||| | ||||| ||||||||||| |||||||| || || ||||| || ||||| ||||| || ||||||||||| |||| |||
-----------------------gtatgtattattta---atttactaggaaaaacccagcaattttttattctcaaaaaaa----------taattttctactgatctttccatttgttgcagATGGATTATCTACTAGGAGAAAACCCAGAAGGAAGATCGTACATGGTGGGCTTCGGAAACAATCCACCCACGCACGCACACCATAGAGGGTCTTCAGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactataaacacagactaattgattaattgggtggtgaaattgcaatttgtacagATGGATTACATACTAGGGAACAACCCTGAAGGAAGATCATACATGGTAGGATTTGGAAAGAACCCACCAACGCAAGCTCACCATAGAGGTGCTTCCGTTT
actaattgattaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtacatatatatacattaattaaatattacatatacatttgaaaacaaacaattaattagtacgtactataaacacagactaattgattaattgggtggtgaaattgcaatttgtacagATGGATTACATACTAGGGAACAACCCTGAAGGAAGATCATACATGGTAGGATTTGGAAAGAACCCACCAACGCAAGCTCACCATAGAGGTGCTTCCGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA