Sequence
atgc intronic sequence ATGC exonic sequence...aatgaacaatggaattgtatatttttcagtataatatggctgacaactattcataattccttattagtatatgtgattcatttcatttcttctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
Basic information
species | Glycine max |
transcript | GLYMA03G28290.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G28290.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g16290.1 (Oryza sativa), 3'ss of exon 10
-aatgaacaatggaattgtatatttttcagtataatatggctgacaactattcataa-ttccttattagtatatgtgattcatttcatttcttctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
| | | | | || | || | || | | || | || ||| | || || | | || | | ||| | ||||| ||||| ||| |||| || ||||| | || ||||||||||| ||||| || |||||||||||||||||||||||||||| ||||| |||| | |||
tcactatctcttcattttcctccttctaggtcttac-tgaatagcagctagatagaagttttgtgccttattctgaaacagaaaatgtttgctatttac-agGTGCTCTGATTCATACTCTGATACGGTGCTAGGATATGCTAACAGTATCCGTACTATTGATGGTGGTACTCATATTGATGGGCTGAAGACTTCATTGACA
upper sequence: GLYMA03G28290.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G111014_T01 (Zea mays), 3'ss of exon 10
aatgaacaatggaattgtatatt-tttcagtataatatggctgacaactattca-taattccttattagtatatgtgattcatttcatt-tcttctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
| ||||| || ||| | || |||| | | |||| || | | ||||| | | | ||| || | ||| || | || ||||| ||| | || || |||||| | || ||||| || || ||||| ||||||||||||||||||||||||||||||| | | |||||||| | ||
gttttacaattcg-ttatattctgttccagtgtttattatttgactacgagggaataattttgtgct--cccttctgaagcaataaattgtccccatttacagGTCCTCTGATTCCTACTCTGATACAGTGCTAGGATACGCAAACAGTATCCGCACTATTGATGGTGGTACTCATATTGATGGTCTAAAGGCTTCATTGACG
upper sequence: GLYMA03G28290.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G04130.1 (Arabidopsis thaliana), 3'ss of exon 10
--aatgaacaatggaattgtatatttttcagtataatatggctgacaactattcataattccttattagtat-atgtgattcatttcatttcttctt-taccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
| ||| || | || | |||| || |||| | | | | |||| || | | |||| ||| || || || ||||||||| ||||||||||||||| ||||| ||||||||||| ||||| || ||||||||||||||||| || || || || | | |||| ||||| |||||
attctcgaca-tgctgtcgtttgttttacacacaaatacacataatatagg---actattctaaatggatctgatgttattggctttgcacatttttgtaccagGTGCTCAGATGCATATTCAGACACAATGCTGGGATATGCCAATAGCATTCGCACTATTGATGGTGGAACACACATCGAAGGTGTGAAAGCTTCATTAACA
upper sequence: GLYMA03G28290.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
aatgaacaatggaattgtatatttttcagtataat-atggctgacaactattcataattc--cttattagtatatgtgattcatttcatttcttctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
|| | ||| ||| | | ||| | | |||||||| | | | | | | | | | | | | ||| || || ||| ||||| |||||||||||||||||| || ||||||||||||||||| |||||||| |||||||| ||||||||||| |||| ||||||||||||| | |||
--tgcatggaaatatttaatacaact-atcatactcaaaactgacaaccttccttgactagaccattgaattgaattttcttgttttatgcatttgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACAMapped 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|7326574|gb|AW620372.1|AW620372EST: AGTTTTAGAAAAGAAACAGATGGCATCACAGTTGATATAGCTTTTCAATG GTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAAT
genomic: AGTTTTAGAAAAGAAACAGATGGCATCACAGTTGATATAGCTTTTCAATGgtatgccctc ... tctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actattcataattccttattagtatatgtgattcatttcatttcttctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
ttcatttcatttcttc CT-rich tract
ataattccttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgaacaatggaattgtatatttttcagtataatatggctgacaactattcataattccttattagtatatgtgattcatttcatttcttctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
aatgaac
- - - - - - - - - - - - - - - - - - tggctga
- - - - - - - - - - - - - - - - - - - - - - - ctattca