Sequence
atgc intronic sequence ATGC exonic sequence...aaatagtattttacctttttgctaagttggtaaacaatactatatacttgatgggtttattacatttcaatctttctgatgagctagatgaaatttgcagAGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATCGACACAATAAAAACACGTCTGCAG
Basic information
species | Glycine max |
transcript | GLYMA05G31870.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G31870.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G169914_T01 (Zea mays), 3'ss of exon 2
-aaatagtat-tttacctttttg--ctaagttggtaaacaatactatatacttgatgggtttattacatttcaatctttctgatgagctagatgaaatttgcagAGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATCGACACAATAAAAACACGTCTGCAG
| | | | || | | || | || || | | | | || |||| | | | ||| ||| | | ||| | || | |||| ||||||| | | || ||||| | ||||| ||||||||||||||||||||||| || || || |||||||| || | || |||
agagttctctattcagcagttggatttagatttatggtatacaatgtaggcttggttg--tccttatgcctca-tttgcttgacgtgccttttacaattc-cagAGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAG
upper sequence: GLYMA05G31870.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G39460.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------------------------------------------aaatagtattttacctttttgctaagttggtaaacaatactatat--acttgatgggttta----ttacatttcaatctttctgatgagctagatgaaatt-tgcagAGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATCGACACAATAAAAACACGTCTGCAG----
|| || | | || || ||||||| | | | || | | | | | | | || | | | | | |||| ||| | | | || ||||||||| |||| ||||||||||||||||||||||| ||||||||||||||||||||||| || || || || || | || |||
gtttgtgtatattttgtcttttggttcatttgcaactattattttatgaatctcatgttctgactcatatacagtccttgtatctgaaaagtaatttctttttttattgctaa-tagtttggcatttttgctttgaatcggcagcttcaggtgtctaagtcttgttattcttatgttttggttttgatgatgcagAGGGGTTTATAGCAGGAGGTACAGCTGGAGTTGTAGTTGAAACAGCTTTATACCCAATTGATACTATTAAGACTAGACTTCAGGCAGMapped 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|120528780|gb|EH256914.1|EH256914EST: AGTTAGCATGGGAGATGAAAAGCCATTTGACTTCCTACGCATTTTATTTG AGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTAT
genomic: AGTTAGCATGGGAGATGAAAAGCCATTTGACTTCCTACGCATTTTATTTGgtaagtataa ... aaatttgcagAGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgatgggtttattacatttcaatctttctgatgagctagatgaaatttgcagAGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATCGACACAATAAAAACACGTCTGCAG
ttctgat putative branch site (score: 3)
tttattacatttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatagtattttacctttttgctaagttggtaaacaatactatatacttgatgggtttattacatttcaatctttctgatgagctagatgaaatttgcagAGGGCGTTATTGCAGGAGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATCGACACAATAAAAACACGTCTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG