Sequence
atgc intronic sequence ATGC exonic sequencegtgttgtctctaaaccctaattgcttccctgtttggatttttgtgtgtttatcgctgaaacatattcgatttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
Basic information
species | Glycine max |
transcript | GLYMA07G31840.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 1
------------------------------------------gtgttgtctctaaacc-ctaattgcttccctgtttggatttttgtgtgtttatcgctgaaacatattcgat-ttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
|| | | | | || ||| ||| | ||| | || || | | | | ||| |||| ||||||||||| || || || ||||| ||||||||||||||||| || ||||||||||||| ||||||
gtacccatttctcctcctcccctccccgcgggcgacgtggtcgtctcgatccggtccggctggttgtttcttgtagcgcggtttgatctgatt-ttgtggtcgccctgatgatgttttgcgcagTTCAACATCGCCAACCCGACCACCGGGTGCCAGAAGAAGCTCGAGATCGATGACGACCAGAAGCT-----------------------------------
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g42950.1 (Oryza sativa), 3'ss of exon 1
--------------------------gtgttgtctctaaaccctaattgcttccctgt----ttggatttttgtgt----gtttatcgctgaaacata-----ttcgatttt-tctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
| | | | ||| || || || ||||||| | | | | |||| | | | || || | | ||||||||||| || || || ||||| ||||||||||||||||| || ||||||||||||| ||||||
gtaagacgctcctcgtcgccgttgctggatcccccagatgagctagggattttatggtagggttagatttttttttcgtgggtggcttctgattcgtgtggtttccgccttcgttttcagTTCAACATCGCGAACCCGACCACCGGGTGCCAGAAGAAGCTCGAGATCGATGACGACCAGAAGCT-----------------------------------
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G054136_T02 (Zea mays), 3'ss of exon 1
gtgttgtctctaaaccctaattgcttccctgtttgga--tttttgtgtgtttatcgc-tgaaacatattcgatttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
|| | || | | || | | ||| | |||||| | ||| | | | | | || |||| ||||||||||| || || || |||| |||||||| ||||||||||||||||||||||||| ||||||
-----gtaagctactcccggcttttcccacgataggaggtgtttgtgggaatatagtatctgatctgtgcgcactttc--cagTTCAACATCGCGAACCCTTCCACCGGGTGCCAAAAGAAGCTGGAAATCGATGACGACCAGAAGCT-----------------------------------
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G054136_T01 (Zea mays), 3'ss of exon 1
gtgttgtctctaaaccctaattgcttccctgtttg--gatttttgtgtgtttatcgc-tgaaacatattcgatttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
|| | || | || | | | | | |||||| | | | | | | | | || |||| ||||||||||| || || || |||| |||||||| ||||||||||||||||||||||||| ||||||
-----gtaagctactcccggcctttcccgcgataggcggtgtttgtgggaatctagtatctgatctgtgcgcactttc--cagTTCAACATCGCGAACCCTTCCACCGGGTGCCAAAAGAAGCTGGAAATCGATGACGACCAGAAGCT-----------------------------------
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G054136_T03 (Zea mays), 3'ss of exon 1
----------gtgttgtctctaaacc---ctaattgcttccctgtttggatttttgtgtgtttatcgctgaaacatattcgattt-------ttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
| | || ||| | | || | | | |||||| | | ||| ||| | | | ||||||||||| || || || |||| |||||||| ||||||||||||||||||||||||| ||||||
gcgcgccgcaacgccaccatgaaggtaagctactcccggcctttcccgcgataggcggtgtttgtgggaatctagtatctgatctgtgcgcactttccagTTCAACATCGCGAACCCTTCCACCGGGTGCCAAAAGAAGCTGGAAATCGATGACGACCAGAAGCT-----------------------------------
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 1
----gtgttgtctctaaaccctaattgcttccctgtttggatttttgtgtgtttatcg-ctgaaacatattcgatttttc---tacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
| | ||| | ||| | | | | ||| || | | || || |||| | | || | | ||||||||||| || || || | || |||||||||||||||||||||||||||||||||| ||| ||
gtaagcttatcctccgcgctgtaaca--tcgataggtggtgtttgtgggaatctagcgtctgatctgtgcccttttcgttgcttccagTTCAACATCGCGAACCCGTCTACCGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCAGAAACT-----------------------------------
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgt-tgtctctaaaccctaattgcttccctgtttggatttttgtgtgtttatcgctgaaacatattcgatttttctac-----agTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
||| || | || | ||| | || |||| | | | |||| ||| | || || ||||| | |||||||| |||| ||||| || ||||| |||||||||||||| || ||||| || |||| ||| ||
gtgcgtgacggcgaaatcgaatagactctacatttgctcgtattcgagtttcctttgctaacctttttcatgtttcttcgtttcagTTCAACGTTGCGAATCCAACTACTGGATGCCAGAAGAAGCTCGAGATCGACGATGACCAGAAACT-----------------------------------
upper sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 1
lower sequence: PP1S31_322V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------------------gtgttgtctctaaaccctaattgcttc---cctgtttggatttttgtgtgtttatcgctgaaacatattcgatttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
|| || | |||| || | || ||| |||| ||||| | | | | || || ||| |||| || || ||||||||||| ||||||||||||||| | || |||||||||||| |||||
gtgtgctgtacgctccgcatattctctctcgtacaatgctgctgatgttgccgttccaggggtggaattattttggacgtgcttgcatttgca-gtgttggagaggactaactgcttgcttcttgcgcagCTCAATATCGCTAATCCCACCACAGGGTGCCAGAAGAAGGTCGAGATCGATGACGACGCTAAGCT-----------------------------------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|15813373|gb|BI785648.1|BI785648EST: CAAGATTGCAAAATGAAG TTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGAT
genomic: CAAGATTGCAAAATGAAGgtgttgtctc ... ttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccctgtttggatttttgtgtgtttatcgctgaaacatattcgatttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
tttttctac CT-rich tract
aaacatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgttgtctctaaaccctaattgcttccctgtttggatttttgtgtgtttatcgctgaaacatattcgatttttctacagTTCAACATTGCAAATCCCACCACTGGGTGCCAGAAGAAGCTGGAAATCGATGACGACCTGAAGCTGTAATCATTTCACTCTCTCTTCAATTTTCATTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG