Sequence
atgc intronic sequence ATGC exonic sequence...cactttgaatgtgttaagatatgtcattcattattaattgatcatagactagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
Basic information
species | Glycine max |
transcript | GLYMA09G04620.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g29050.2 (Oryza sativa), 3'ss of exon 11
cactttgaatgtg-ttaagatatgtcattcattatta-attgatcatagactagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
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----------gtaactatggtatttcgtttatgatggtatttatgtaggattattcccaaattattct-------tacctgagttttcctgctgtacataagGGAATCTGAGCCAAATTCCTGGGAGGACACAATGAAAGATGAGCTGGACCGAACGAAATATCCTCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAC
upper sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g20860.1 (Oryza sativa), 3'ss of exon 8
------------------------------------------cactttgaatgtgttaagatatgtcattcattattaattgatcataga----ctagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
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gtaatgttttgtgctctcatcatatttttatctcaagatttataggat-agtgtttcctaatttaccgaacacgattaatgtttcctaatgattctaaaacctttttttttgcctatctaattgcattttactatcttgttta-agGGAATCTGAGCCAAATTCTTGGGAGGACACCATGAAAGATGAGCTTGATCGTACTAAATATCCTCGCATGCCCTGGCATGATGTTCAGTGTGCTCTTTAT
upper sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 9
cactttgaatgtgttaagatatgtcattcattattaattgatcatagactagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
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----------------------gtattttgttgttatcttctacccattcagatgtatgggg--caaagtccctaaatgtcacttcatctctgtaaatagGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT
upper sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G16785.1 (Arabidopsis thaliana), 3'ss of exon 10
cactttgaatgtgttaaga--tatgtcattcattattaattgatcatagactagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
| |||| || || | | | | ||||| | ||| | | | | || ||| | | || | | | || |||||| |||||| |||||||| ||| | ||||| ||| | |||||||||||||||| ||| |||| |||| || ||||||||||||||||| |||||||| | |||
aattttgtattaaatacaaaccaggatgtccattagtcatttcacctttccgaattcaaccctctgattttttggtt-tgaacgtacttaaaattttc-cagAGAGTCTGAACCCAATACTTGGGAGGATGCTCTGAAAGATGAATTAGAGCGTAAAAAGCATCCACGGATGCCTTGGCATGATGTGCATTGTGCTTTATGG
upper sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 11
cactttgaatgtgttaa-gatatgtcattcattattaattgatcatagactagctctt--tcctgttcaacgatagtaatagattcattttcaattttga----cagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
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--gtgtgagaacattgacaatagtttcttcttttctaagtaattgcaagtttgttttcactctggctctttcacattggataacttgtaatgaattttcaatttcagGGAATCTGAACCAAATTCTTGGGAAGATACAATGAAAGATGAATTGGATCGTGGAAAATATCCTCGTATGCCATGGCATGACGTCCATTGTGCCCTATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agactagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
taatagattcattttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactttgaatgtgttaagatatgtcattcattattaattgatcatagactagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG
- - - gaatgtg
- - - - - - - - - - - - cattcat