Sequence
atgc intronic sequence ATGC exonic sequenceAGAACCGAAAATGATCGGGTTTGCTTTGGTAGATCAGGCATACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATGgtatgaatgttatgctcaactatgataacattaatagacccacaacctgcttgtgtgtgatggtcaatcaataacgattgatacttttattagtattatg...
Basic information
species | Glycine max |
transcript | GLYMA06G13330.1 |
intron # | 20 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13330.1 (Glycine max), 5'ss of exon 20
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 5'ss of exon 19
AGAACCGAAAATGATCGGGTTTGCTTTGGTAGATCAGGCATACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATGgtatgaa----tgttatgctcaactatgataacattaatagacccacaacctgcttgtgtgtgatggtcaatcaataacgattgatacttttattagtattatg
|| || |||| || ||||| ||||||||| |||| || ||||| ||||||||||| ||||| | |||||||||||||||||||| |||||| | | | | ||| | | | | | || | | | | ||| || | | |||| || || ||| ||
AGGACAGAAATGGAACGGGTCTGCTTTGGTCGATCTGGTATACATGGATGGGGCCTTTTTGCGAGAAGAAATATTCAAGAAGGAGAAATGgtaagcagagccatcagaacatacttcttccaagaaagaaaatctacggcat-ttcctctgttgtg-ttgacgaatattgaaatgtaatttctttccag-----
upper sequence: GLYMA06G13330.1 (Glycine max), 5'ss of exon 20
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 5'ss of exon 19
AGAACCGAAAATGATCGGGTTTGCTTTGGTAGATCAGGCATACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATGgtatgaatgttatgctcaactatgataacattaatagacccacaacctgcttgtgtgtgatggtcaatcaataacgattgatacttttattagtattatg
|| || |||| |||||||| |||||||| |||| || || || |||||||| || |||||| | |||||||| ||||||||||| |||||||| | | | || | ||||| | | | | | || | || | | | | | ||| | | || || | | | |
AGGACAGAAATGGATCGGGTCTGCTTTGGGCGATCTGGAATTCATGGATGGGGTCTTTTTGCAAGAAGAAATATCCAAGAAGGAGAAATGgtatgtcagc-agacccatttgtgatattgtgtttggtct----atttg---ggatgaggggagtgtttattgtcgagaggtgctattgt--atttcag-
upper sequence: GLYMA06G13330.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 5'ss of exon 20
AGAACCGAAAATGATCGGGTTTGCTTTGGTAGATCAGGCATACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATGgtatgaatgttat---gctcaactatgataacattaatagacccacaacctgcttgtgtgtgatggtcaatcaataacgattgatacttttattagtattatg
|| || ||||||||| ||||||||||||||||||| || ||||| || ||||||||||||||||| | ||||||||||||||| |||||| | || | |||| | | | | | || | | | | | ||| || |||| || || ||||
AGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATGgtacatactctaaaaagttcaaattacagagtttctaaggaaatttctttgtttcttttttaccccctgaaggttaaggaatgattctcgagtt--cattag-
upper sequence: GLYMA06G13330.1 (Glycine max), 5'ss of exon 20
lower sequence: EFJ23651 (Selaginella moellendorffii), 5'ss of exon 11
AGAACCGAAAATGATCGGGTTTGCTTTGGTAGATCAGGCATACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATGgtatgaatgttatgctcaactatgataacattaatagacccacaacctgcttgtgtgtgatggtcaatcaataacgattgatacttttattagtattatg
| ||| || || | ||||||||||||| ||||||||| || |||||||| |||||||| | || | || |||||||||| |||||| ||| | | || || || | | | | || | || | |||| ||
AAAACTGAGAAAACGAGAGTTTGCTTTGGTAAATCAGGCATCCATGGATGGGGACTCTTTGCGAGGCGATACATCAAAGAAGGAGAGATGgta--aatcatcgccctgcgtactattacttcgagttgattgctaaatg-tcgttcgggatg-ccag---------------------------------Mapped 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|16105061|gb|BI892801.1|BI892801EST: TACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATG GTTCTTGAATATCGTGGTGAACAAGTGAGGCGCAGCATTGCAGATTTGAGG
genomic: TACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATGgtatgaatgt ... tcctaagcagGTTCTTGAATATCGTGGTGAACAAGTGAGGCGCAGCATTGCAGATTTGAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAACCGAAAATGATCGGGTTTGCTTTGGTAGATCAGGCATACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATGgtatgaatgttatgctcaactatgataacattaatagacccacaacctgcttgtgtgtgatggtcaatcaataacgattgatacttttattagtattatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA