Sequence
atgc intronic sequence ATGC exonic sequencegtaggattctaatttagttgactttcctatgtatataactgtcataatgtttattaatgattttaacattaattggaatgaaacatttgtaattatttaacatgtcaatagctatggctgatttaggtaaccatttttagtataaaattctattgaacacatggttgtgacacagGGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAAAGAGAAATGAGATACTCAGACTTGAGAAAGATTGACCGAGGGGTGAGGA
Basic information
species | Glycine max |
transcript | GLYMA20G38800.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G38800.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g74530.2 (Oryza sativa), 3'ss of exon 3
gtaggattctaatttagttgactttcctatgtatataactgtcataatgtttattaatgattttaacattaattggaatgaaacatttgtaattatttaacatgtcaatagctatggctgatttag-gtaaccatttttagtataaaattctattgaacacatggttgtgacacagGGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAAAGAGAAATGAGATACTCAGACTTGAGAAAGATTGACCGAGGGGTGAGGA
|| ||| | || | |||| | | ||| || || | | | | ||| || | || || | || | ||| |||| || | | ||| | ||| | || || | || || ||||| |||||||||||||| ||||||||||||| ||||||||| || ||||| ||||
-------------------------------------------------------------------ttttgcaaccgtgatccccttttctttat---aatcgctgcgtgctctgaatgttctgatgctaacatctt-gttgctaacttttgccccccaaaaaactgt-----agGGTATTGCAAGAAGACTAATAAAAGCGGCTCTGCGAGAGGCAGCAAAAAAAAGAGAAATGAGGTACTCAGACTTGAAAAAGATTGATCGCGGGGTCAGGA
upper sequence: GLYMA20G38800.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0067g03500.t01 (Vitis vinifera), 3'ss of exon 3
gtaggattctaatttagttgactttcctatgtatataactgtcataatgtttattaatgattttaacattaattggaatgaaacatttgtaattatttaacatgtcaatagctatggctgatttaggtaaccatttttagtataaaattctattgaacacatggttgtgacacagGGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAAAGAGAAATGAGATACTCAGACTTGAGAAAGATTGACCGAGGGGTGAGGA
| | || || || |||| || | | || |||| ||| || || | || | | | || || ||| | | || | | ||||| ||||| || | ||||||||| ||| ||||| | ||||| ||||||||||| || ||||||||||||||| ||| |||||| || ||||| |||||||
-------------------------------------------------------------tacactgttttttcaaa-gaaatatgtatgat-----aacaagtctg-agtcattacctcttgaaattgc--ttcctaacatataccccaat--gttatgtctttgtg---cagGGGATTGCAAGGAAACTTGTCAAAGCTGCATTACAGGAAGCGGCAAAGAAAAGGGAGATGAGATACTCAGACCTGAAAAAGATCGAGCGAGGTGTGAGGAMapped 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|16346172|gb|BI971767.1|BI971767EST: AAATGAGCAATCAAGAAGCAGTTGACATTGTCCAGAGCTGTCCACGTAAT GGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAA
genomic: AAATGAGCAATCAAGAAGCAGTTGACATTGTCCAGAGCTGTCCACGTAATgtaggattct ... tgtgacacagGGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaggtaaccatttttagtataaaattctattgaacacatggttgtgacacagGGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAAAGAGAAATGAGATACTCAGACTTGAGAAAGATTGACCGAGGGGTGAGGA
aggtaac putative branch site (score: 3)
taaccatttttagtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggattctaatttagttgactttcctatgtatataactgtcataatgtttattaatgattttaacattaattggaatgaaacatttgtaattatttaacatgtcaatagctatggctgatttaggtaaccatttttagtataaaattctattgaacacatggttgtgacacagGGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAAAGAGAAATGAGATACTCAGACTTGAGAAAGATTGACCGAGGGGTGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA