Sequence
atgc intronic sequence ATGC exonic sequence...accgaaattgcaatcgcggaccctttttaaaatccttaacatgaatggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
Basic information
species | Glycine max |
transcript | GLYMA07G35630.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G35630.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G69490.1 (Arabidopsis thaliana), 3'ss of exon 1
accgaaattgcaatcg--cggaccctttttaaaatcct--taacatgaatggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
|| | || | || | | | ||| | | ||| | ||| | | | | | ||| | | | | | | |||| |||||||| |||||||||||||| ||||||||||| || || ||||| || || || ||||| || || || || ||||| ||| |||| || || ||
------gttagacccggtttatctctcaatgataacctattcttctagatgttcatgtttagagctactttccttatttgctttgttcgttttgtatt-tacagAGAAAACAGAGTTTGGAGAAAATGAGTGGTATTTCTTCAGCCCTAGAGAAAGAAAATATCCAAACGGAGTCAGACCAAACCGGGCAGCTGTTTCCGGTTA
upper sequence: GLYMA07G35630.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0026g02710.t01 (Vitis vinifera), 3'ss of exon 1
accgaaattgcaatcgcggaccctttttaaaatccttaacatgaatggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
|| || || | | | ||| | ||| | | | || | | | || || | || ||| | |||||| || | ||||||||||||||||| |||||||||||||| || | ||| | ||||| || ||||||| || || |||||||| || ||||| || ||
-gtgagtttcatttcattggtaggagtacatatctcaactatgctcatgctcatgtaactcgtgttta-acctttaatttttactatatgggctgtgcagAGAAGGCGGAATTTGGAGAAAATGAGTGGTATTTCTTTAGCCCGCGTGACCGTAAGTATCCCAATGGGGCTAGACCCAACCGAGCTACAGTGTCCGGCTA
upper sequence: GLYMA07G35630.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S140_93V6.1 (Physcomitrella patens), 3'ss of exon 1
-------accgaaattgcaatcgcggaccctttttaaaatccttaacatgaatggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
|| || | || | | || || ||| | | ||| || |||| | | | | ||||| || || ||||| ||| || ||| ||||| | |||||||||||||| || ||| ||||||| |||||||||||||| | || || ||||||||| ||| ||||||||
taagcttctcgcaaattgaacggaagttagttatttaaacttctg-tgtccatgtgat--cattaaacaccgaggttggagtataattaaa--actttgc--tgcagGAAAAGCAATATTCGGAGAGAGAGAATGGTATTTCTTCAGCCCACGAGACAGAAAGTACCCAAATGGAGCCAGACCCAACCGAGCAGCTGCCTCTGGGTA
upper sequence: GLYMA07G35630.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S164_33V6.1 (Physcomitrella patens), 3'ss of exon 1
---accgaaattgcaatcgcggaccctttttaaaatc--cttaacatgaatggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
|| |||| || || || | | |||| ||| || ||||||| |||| | | || | || || | || |||||| || || || |||||| || |||||||| || |||||||| ||| |||||||||||||||||| | || ||||| || | | || || |
ccaggcggtgttgcgat----atttctgggtagattgagtttaagatgtatt-tattgtagcacatacttcgataagattaatgttggtttgctctgacatgcagGGAAGGCAATTTTAGGAGAAGGAGAGTGGTATTTTTTCAGTCCAAGGGACCGGAAGTACCCAAATGGGGCTCGACCCAACCGGGCTGCAGCTTCAGGATT
upper sequence: GLYMA07G35630.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S259_67V6.1 (Physcomitrella patens), 3'ss of exon 1
--accgaaattgcaatcgcggaccctttttaaaatcctt-aacatg-aatggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
|||| | | | ||| | | ||| || || || || | || ||| | | | | | | ||| || ||||| || | ||||||||| || |||||||| || || |||||||||||||| ||||||||||| | | ||||||||||| | | || || ||
ttgttgaaac-atagcagagcggcctactgattttccgggaatctgtaaaagttcaagagcgtataaattaaaagaatcgattct---ctactttgatttgcagGCAAGGCTATTTTTGGAGAAGGAGAGTGGTATTTTTTCAGCCCAAGAGACAGGAAATACCCAAATGGAGCTCGCCCTAACCGAGCTGCAGCTTCCGGATA
upper sequence: GLYMA07G35630.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S5_359V6.1 (Physcomitrella patens), 3'ss of exon 1
----accgaaattgcaatcgcggaccctttttaaaatccttaacatgaatggtattgtattacatctcctaacacacttgttattaacttaccatgg--aatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
| | ||| | | | |||| | ||||| || | | || || | | | | | | | ||| | |||| ||||| ||| || || ||||| | |||||||||||||||||||| ||||| || |||||||| ||||| | ||||| ||| |||| | | || |||||
tagtatcatctcacaaattgaaggcagcgcctaaactatccaacat-aacgattcagttgtaaaatactgagc-----tttgagtaaaatgtcatgtttgctgcagGAAAAGCAATTTTCGGAGAGAGGGAATGGTATTTCTTTAGTCCTAGAGATAGAAAGTACCCTAATGGAGCCAGGCCCAACAGAGCGGCCGCTTCAGGGTA
upper sequence: GLYMA07G35630.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S164_25V6.1 (Physcomitrella patens), 3'ss of exon 2
accgaaattgcaatcgcggaccctttt--taaaatccttaacatgaatggt---attgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
| || ||| | | | | | | ||| || ||| | | || |||||| | | ||||||| | | | |||| | || || | ||||||| | || ||||| | ||||||||||||||| |||||| |||||||||||||| ||||| | ||||| ||| |||| | | | ||| ||
----atatgacaacagtgcaatcatgtcgtaacatacttgcaaaggatccccaaattgtagtctgtggcctaaca-agtgatgcttaattgtgcaacgagtacagATAAGGCGTTGTTCGGAGAGAGAGAATGGTATTTCTTTTCTCCAAGGGACAGGAAGTACCCCAATGGCGCCAGGCCCAACAGAGCTGCCGCGAGTGGCTAMapped 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|254342746|gb|GR858908.1|GR858908EST: TATCATCCCAGAAGTGGATCTCTATAAGTTTGATCCTTGGGAATTGCCAG ATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACA
genomic: TATCATCCCAGAAGTGGATCTCTATAAGTTTGATCCTTGGGAATTGCCAGgtatattaat ... tggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACA
EST:
gi|23727462|gb|BU761764.1|BU761764EST: TATCATCCCAGAAGTGGATCTCTATAAGTTTGATCCTTGGGAATTGCCAG ATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACA
genomic: TATCATCCCAGAAGTGGATCTCTATAAGTTTGATCCTTGGGAATTGCCAGgtatattaat ... tggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
ttgttattaactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accgaaattgcaatcgcggaccctttttaaaatccttaacatgaatggtattgtattacatctcctaacacacttgttattaacttaccatggaatgcagATAAAACAGAATTTGGAGAAAATGAATGGTATTTCTTTAGTCCAAGAGACAGGAAGTACCCAAATGGGGTGAGGCCTAACCGAGCAACTGTGTCTGGGTA
- - - - tgcaatc
- - - - - - - - - - - - - - - - - - - -catgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttacca