Sequence
atgc intronic sequence ATGC exonic sequence...catttccaatttattatgatccactatgctttgagttgctcaaaatgcatgagaagtagtatccaggcttattactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
Basic information
species | Glycine max |
transcript | GLYMA08G15610.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g73450.1 (Oryza sativa), 3'ss of exon 4
catttccaatttattatga--tccactatgctttgagttgct-caaaatgcatgagaagtagtatccaggcttattacta-attttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
||| || | | || || || | | ||| | || ||| | || | || || | | | ||| || || | || | | || |||||||| ||||| |||||||| |||||||||||||||||||||||||| || || || || || || || || || |||||||||||||| || |||
tgttttaaaaaaaagaagacatcattcctgttataagtgatttcataatttctcagca-taaaat---agttcaccactttatcttactcttttcctaattcagCATGTTGGCTACTGTGATGAATGCCATATTTCTTCAAGCAACAATGGAGAGCATTGGAATACCAACCCGTGTCCAAACTGCATTTCGTATGTCAGAAGTT
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G149535_T01 (Zea mays), 3'ss of exon 4
---------------catttccaatttattatgatccactatgctttgagttgctcaaaatgcatgagaagtagtatccaggcttattactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
|| | || | | ||| || | |||| | | ||| | | |||| | | ||| || || ||||| | | |||||||||||||| ||||||||||||||||||||||||||||||||||| || || || || || || || || || || || |||||||| || |||
gcgtcgcctaggcgacaccttaaaaacactgtgacaaacagt--tttgtagttttggtaatcttaaaacaacagta------catcttatgaagctttcctaattcagC-------ATGTTGGCCACTGTGATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATCGGAATACCGACCCGTGTCCAAACTGCCTTCCGTATGTCAGAAGTT
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G139462_T04 (Zea mays), 3'ss of exon 3
catttccaatttattatgatccactatgctttgagttgctcaaaatgcatgagaagtagtatccaggcttattactaattttgtttaatttatcc--tctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
| | | || ||| || | || ||| | | | | ||| ||| | | | || || || || | | || ||| |||||||||| ||||||||||||||||||||||| || |||||||| || || || || || || || ||||| || || |||||||| || |||
actctactgttcattctggaaggc-attcttgtgataaccagttgtatagttttggtactattaaaaca-acagtacatcttattatgctttcctaattcagCATGCTGGCCACTGTGATGAATGCTATATTTCTTCAAGCGACGATGGAGAGCATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTT
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G18680.1 (Arabidopsis thaliana), 3'ss of exon 4
--catt-tccaatttattatgatccactatgctttgagttgctcaaaatgcatg-agaagtagtatcca----ggcttattactaattttgtttaattt---atcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
|| | | || | | | | | ||| || ||| | || |||| | || | | || || | ||| || || | || ||||||| |||| ||||| |||||||| |||||||||||||| |||||||||||||| ||||| || || || || || || || || || ||||| || ||
gtaatcatacgcctttgtgtcaaaggatcttcttcttcttactcggagaagatccagaattttcctctactggaggtttttggtctcattggtttatctgaaattggatagGATGCTGGCAACTGTGATGAATGCAATATTTCTTCAAGCGACAATGGAGAGTATTGGCATCCCAACCCGTGTTCAAACTGCTTTCCGCATGTCGGAAGTC
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
----catttccaatttattatgatccactatgctttgagttgctcaaaatgcatga-gaagtagtatccaggcttattactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
||| | | |||| || | ||| || || | || | | | ||| || || || | |||| | || | |||||||||||| ||||||||||||||||||||||||||||||||||||||||| || ||||| || ||||| || ||||| ||||| || |||||||| |||
ttcttgattcgcgtgttgtatggaggac-acctgttgtgtatctttccttaaattatgtaactgtaatttggggtagaacct-tgatgttgga---attttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S241_40V6.1 (Physcomitrella patens), 3'ss of exon 4
----catttccaatttattatgatccactatgctttgagttgctcaaaatgcatgagaagtagtatccaggcttattactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
| | || | || || || ||||| || || || || | ||| || | | | | ||| | || | | || ||| |||||||||||||||| |||||||||||||| || ||||||| ||||| ||| | || || || |||||||| || || | ||| |||||||
tatgcgatatcatgattggatcatatggtacgcttttagatgtgaaattcacac-acaagcgctaatt--gttcaatgctacatctggcgtggatg-ctggcagCATGATGGCCACTGTTATGAACGCTATATTTCTTCAGGCCTCAATGGAAAGTATTGGCGTGCCCACACGTGTGCAGACTGCCTTCAGAATGAATGAGGTTMapped 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|209728096|gb|BW655331.1|BW655331EST: GCTGATTATATTGG GATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAG
genomic: GCTGATTATATTGGgtgattccct ... tatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAG
EST:
gi|16277118|gb|BI942213.1|BI942213EST: TCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGG GATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAG
genomic: TCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGGgtgattccct ... tatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcatgagaagtagtatccaggcttattactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
tttatcctct CT-rich tract
ttattactaattttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catttccaatttattatgatccactatgctttgagttgctcaaaatgcatgagaagtagtatccaggcttattactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGTATAGGCATTCCTACTCGGGTGCAGACCGCATTTCGTATGTCTGAGGTT
- - - - - - - - - - - -ctatgct
- - - - - - - - - - - - - - - - - gttgctc
- - - - - - - - - - - - - - - - - - - - - - -tgcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaggct