Sequence
atgc intronic sequence ATGC exonic sequencegtatgactttgcccctaatcttctattttccaatgccacctttcctcaaagaaataatgcctttgcttctctgtggcagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
Basic information
species | Glycine max |
transcript | GLYMA11G29520.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g18590.1 (Oryza sativa), 3'ss of exon 7
-----------gtatgactttgcccctaatcttctattttccaatgccacctttcctcaaagaaataatgcctttg-----------cttctctgtggcagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
| || | | ||| || || | || || | | || || || ||||| | | | ||||||| |||||||||||||||||||||||| || || || ||| |||| ||||| ||||| |||||| | ||||| || ||||| || | ||| ||||
gcgcacattctaaaaatattagacagcaattttttacaaacacatagcaagatatatgtaaatgatg-tgtctttgtctgcggtgaccattatcttaccagGTGCGCCTAGCTGTTGCTGGTGCTTTCCATACAAGCTTCATGCAACCTGCTGTTTCAAGATTGGAATCTGCATTAGCTGAGACAGAGATAAAAACACCAA
upper sequence: GLYMA11G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G029543_T01 (Zea mays), 3'ss of exon 7
-------------------------------------------------------------------------------------gtatgactttgcccc-taatcttctattttccaatgccacctttcc-tcaaagaaataatgcctttgcttctctgtgg---cagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
| | || ||| | || | | | || |||| | | | ||||| ||| | | || ||| ||||| | ||||||||||||||| |||||||| ||||| || ||| |||||||||| ||||| |||||| | || ||||| | || || || ||||| || |
gtcggtgttcccacaatgttttgcttgagccatatttgtggaattattatctataattttatatggttaaccatattttagttttcagttcttatgtcccattttcctttttgtttcaatcttagtatgctaccaaaggaatttacattgttaatcattgtatttccagGTTCGCCTAGCTGTTGCTGGCGCTTTCCATACTAGCTTCATGCAACCAGCTGTTTCAAGATTGGAATCTGCGTTGGCTGCCACTGAGATTAGAACACCTA
upper sequence: GLYMA11G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G053639_T01 (Zea mays), 3'ss of exon 1
-----------------------------------------------------------------------------gtatgacttt-gcccctaatcttctattttcca----atgccaccttt----cctcaaagaaataatgcctttgcttctctgtgg------cagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
|| |||| || | | |||||||| | || || | | ||| ||| || || | | | ||||| | |||||| ||||||||||||| || ||||| || ||| |||||||||| ||||| ||||| | || || || | || ||||| ||||| || |
gttagtgttccaaaaatgttttacttgaagcatatttatggaaatatatcatctataattttatatggctaggaatattacagctttcagttagtatgtcccattttccattttgtttcattcttagtattttacgaaaagaatttacatggttaaccattgtatttccagGTTCGGCTAGCTCTTGCTGGTGCTTTGCATACTAGCTTCATGCAACCAGCTGTTTCAAGACTGGAACCTGCGTTAGCTGCTACTGAAATTAGAACACCTA
upper sequence: GLYMA11G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G30200.2 (Arabidopsis thaliana), 3'ss of exon 7
gtatgactttgcccctaatct--tctattttccaatgccacctt---tcctcaaagaaataatgcctttgcttctctgtg--gcagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
|||| || | | ||||| | ||| || | | | | | || ||||| | ||| | || | |||||| ||||||||||| |||||||||||||||||||| ||| ||||||| || || || || ||||| ||||||||| | ||||| ||||||| || |
gtatc-ctctctctctaattccatttatgttatgaaatcttcctcgatgctatcagaaacatgattgttggcggttggttctgtagGTGCGTCTAGCTGTTGCAGGTGCTTTCCACACTAGTTTCATGGAACCAGCAGTCTCGAGATTAGAAGCTGCATTGGCAGCCACAGAGATCAGAAGTCCGA
upper sequence: GLYMA11G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g07380.t01 (Vitis vinifera), 3'ss of exon 7
gtatgactttgcccctaatcttctattttccaatgccacctttcctcaaagaa-----ataatgcctttgcttctctgtggcagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
| ||| | | |||| | | | |||| | |||| | | || || | | || | ||||||| || || || |||||||||||||||||| ||| ||| |||| ||||| ||||| |||||||| || ||||| | || ||||||||||| ||||
--gtatttttctttacagttttctgtct---gaagccatccttccaccagcaagactcatggcacaacttttttctcttctcagGTGCGTCTTGCAGTGGCTGGTGCTTTCCACACTCATTTCATGGAACCTGCTGTCTCAAGATTGGAAGCCACACTGGCAGCTACGGAAATCAGAACTCCAAMapped 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|17964102|gb|BM270842.1|BM270842EST: GAGTAGAAGTGCTGGAATCCAAGGCAAAGTCTTTCAAGGCTCGAATGACG GTGCGCCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCT
genomic: GAGTAGAAGTGCTGGAATCCAAGGCAAAGTCTTTCAAGGCTCGAATGACGgtatgacttt ... tctgtggcagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttccaatgccacctttcctcaaagaaataatgcctttgcttctctgtggcagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
tgcctttgcttctct CT-rich tract
aaagaaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgactttgcccctaatcttctattttccaatgccacctttcctcaaagaaataatgcctttgcttctctgtggcagGTGCACCTAGCTGTTGCTGGTGCTTTCCACACTAGTTTTATGAAACCAGCTGTGTCAAGGTTGGAAGCAGCATTGGCAACAACAGAAATCAGAACCCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG