Sequence
atgc intronic sequence ATGC exonic sequence...cttttgctggacacaatccaattgattgtaattgatttgctaattactttatttgttccattttttttaacattatgctgtgtcgtttttgcctttacagATATCCAAATGTTAGAGAGATTTGGTTCGATGGAGCAAAGGGTGCCAATGCAAAAAATATGACGTATTACTTTTCAGATTGGTTTTCCATGGTGAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA10G38670.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38670.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0022g02170.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------------------cttttgctggacacaatccaattgattgtaattgatttgctaattactttatttgttccattttttttaacattat-gctgtgtcgtttttgcctttacagATATCCAAATGTTAGAGAGATTTGGTTCGATGGAGCAAAGGGTGCCAATGCAAAAAATATGACGTATTACTTTTCAGATTGGTTTTCCATGGTGAAGGAG
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gtaagccattaatgtttcttcataattttcaaaataagtgttattcttaaaaataggatagaatatga---actaccttaaaaaagtagggaatcgaaaaaaaaaaattctattgagatttgatctatattatggcagATATGGGGTCATACAAGAGATTTGGTTCGATGGAGCAAAGGGTGAGGATGCAGCAAATATGTCATACTACTTTGAAGAATGGTTTGAAATGGTGAAGGAG
upper sequence: GLYMA10G38670.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0022g02170.t01 (Vitis vinifera), 3'ss of exon 4
cttttgctggacacaatccaattgattgtaattgatttgctaattactttat-ttgttccattttttttaacattatgctgtg-tcgtttttgcctttacagATATCCAAATGTTAGAGAGATTTGGTTCGATGGAGCAAAGGGTGCCAATGCAAAAAATATGACGTATTACTTTTCAGATTGGTTTTCCATGGTGAAGGAG
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--gtaagttactgatactcaatcggtt-tgctttctaagaaaagtactcaaaattattgtacatttgtaatctttttggattggttggtttt--ttttttagATATGGGAATGTGAGAGAGATTTGGTTCGATGGAGCAAAGGGCGCAAATGCGCCAAATATGTCGTATGACTTTGGAGACTGGTTTGCCATGGTGAGGGAAMapped 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|151396210|gb|EV266087.1|EV266087EST: TTGCTCTACAACCAATACTACTTGGCTCAACTACAAGAGTTGCTCAAGAA ATATCCAAATGTTAGAGAGATTTGGTTCGATGGAGCAAAGGGTGCCAATGC
genomic: TTGCTCTACAACCAATACTACTTGGCTCAACTACAAGAGTTGCTCAAGAAgtgagttgag ... gcctttacagATATCCAAATGTTAGAGAGATTTGGTTCGATGGAGCAAAGGGTGCCAATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttatttgttccattttttttaacattatgctgtgtcgtttttgcctttacagATATCCAAATGTTAGAGAGATTTGGTTCGATGGAGCAAAGGGTGCCAATGCAAAAAATATGACGTATTACTTTTCAGATTGGTTTTCCATGGTGAAGGAG
ttttaac putative branch site (score: 2)
tcgtttttgccttt putative PPT
ttccattttttttaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttgctggacacaatccaattgattgtaattgatttgctaattactttatttgttccattttttttaacattatgctgtgtcgtttttgcctttacagATATCCAAATGTTAGAGAGATTTGGTTCGATGGAGCAAAGGGTGCCAATGCAAAAAATATGACGTATTACTTTTCAGATTGGTTTTCCATGGTGAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - tgctgga
- - - - - - -caatcca
- - - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgtgt