Sequence
atgc intronic sequence ATGC exonic sequence...aaattgctcattttagaggaattgcacccctgctgtacaggttaattaattaatatactccatgtagtccttacatggttggtgattttgtggcacacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC
Basic information
species | Glycine max |
transcript | GLYMA19G28770.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
-----aaattgctcattttagaggaattgcacccctgctgtacaggttaattaattaatatactccatgtagt----ccttacatggttggtgattttgtggc--acacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC
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gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
upper sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 8
aaattgctcattttagaggaattgcacccctg--ctgtacaggttaattaattaatatactccatgtagtccttaca-tggttggtgattttgtggcacacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC
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--------------gtaagactcgaaaatcaagactgtatgacctaatcgaat--ctaaagccactcgatcaaaacactgatttgtgttatatctgtgtgaagAACATACAAGGATTCATGTGGGATGAGGAAAAGGTGAATAGGGAGCTAAAGACCTACATGACTCGCGGGTTCAAAGACTTGAAAGAAATGTGTCAGACGC
upper sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 8
-aaattgctcattttagaggaattgcacccctgctgtacaggttaattaatt-aatatactccatgtagtccttacatggttggtgattttgtggcacacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC
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gtatgtatgagtctctcaacaact-tacctttg----acagaccaagtactcgaacaaaaccgattttgatcagat-tagttgtt--tccggtaatgtgcagAACATTCAAGGCTTTATGTGGGAGGAAGAGAAGGTGAACGATGAGCTAAAGACTTACATGACTCGCTCTTTCAAGGACTTGAAAGAGATGTGCAAAACTC
upper sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 10
aaattgctcattttagaggaattgc--acccctgctgtacaggttaattaattaatatac-tccatgtagtccttacatggttggtgattttgtggcacacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC
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-tgatgctagagctgtaatgaatgttgaattttataaaaactgacaatgaatgtgcacacatttgcatggtagtaaaac--tcggtggttttgtgacttgcagAACATTCAAGGTTTCATGTGGGATGAGGAGAAAGTAAACAATGAACTGCGGACGTACATGACCAGAGGGTTCAAAGATGTGAAGGAGATGTGCAGAACCCMapped 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|14990362|gb|BI316035.1|BI316035EST: TATTTGCAAACTCAGGAGGCGTTACAGTTAGCTACTTTGAGTGGGTCCAG AACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAG
genomic: TATTTGCAAACTCAGGAGGCGTTACAGTTAGCTACTTTGAGTGGGTCCAGgtaactatta ... tggcacacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaattaatatactccatgtagtccttacatggttggtgattttgtggcacacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC
tccttac putative branch site (score: 2)
taatatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaattgctcattttagaggaattgcacccctgctgtacaggttaattaattaatatactccatgtagtccttacatggttggtgattttgtggcacacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - cccctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttgg