Sequence
atgc intronic sequence ATGC exonic sequence...cacctcacctttgttttctttgtgcttcgttggtcttaatttttaattttaactaagtagttaattagttatgttcatattattccttgtatctttccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
Basic information
species | Glycine max |
transcript | GLYMA02G39360.1 |
intron # | 27 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 27
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
------cacctcacctttgttttctttg-tgcttcgttggtc-ttaatttttaatttta---actaagtagttaattagttatgttcatattattccttgtatctttcca-----------gGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
| || |||| || || || | | || ||||| | | || | || || | || || ||| |||| | ||| || ||| ||||| ||||||||||| |||||||||||| | || || || | || ||||||||||| ||||||||||| || ||||||||||| ||| | || |
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaagcttat-gcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 27
lower sequence: GRMZM2G091121_T01 (Zea mays), 3'ss of exon 7
------cacctcacctttgttttctttg-tgcttcgttggtc-ttaatttttaattttaacta--agtagttaattagttatgttcatattattccttgtatctt-----------tccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
| || |||| || || || | | || ||||| | | || | | || | || ||| |||| | ||| | ||||| ||||| ||||||||||| |||||||||||| | || || || | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || |
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaggcgtatgcttgcattctgattagtaaacacatccaatcatatgtaatgcagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 27
lower sequence: GRMZM2G062042_T02 (Zea mays), 3'ss of exon 12
------cacctcacctttgttttctttg-tgcttcgttggtc-ttaatttttaattttaacta--agtagttaattagttatgttcatattattccttgtatctt-----------tccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
| || |||| || || || | | || ||||| | | || | | || | || ||| |||| | | ||| | ||||| ||||| ||||||||||| |||||||||||| | || || || | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || |
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatacagcaaaaggcgtatgcttgcattctgattagtaaacgcatccaatcatatgtaatgcagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 27
lower sequence: GRMZM2G395549_T01 (Zea mays), 3'ss of exon 12
cacctcacctttgttttctttgtgcttcgttggtcttaatttttaattttaactaagtagttaattagttatgttcatattattcc--ttgtatctt-tccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
|| || | | || | || || | | | | || | | || | | ||| | ||| | | ||||| ||||| |||||||||| |||||||||||| | || || || | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || |
---gtccccgacaatatgggagtagctaattcaatactatatacagcaaaaggcgtatgcttgcattctgattagtaaacgcatccaatcatatgtaatgcagGGTAAGAAAGAATGTTTTGTTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 27
lower sequence: GRMZM5G804382_T01 (Zea mays), 3'ss of exon 4
------------------cacctcacctttgtttt---ctttgtgcttcgttggt-cttaatttttaattttaactaagtag--ttaattagttatgttcatattattccttgtatctttc-cagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
| | || | | | | | | | | | | | ||| | | | | ||| | | || | | || || || ||| | || | | ||||| ||||| ||||| ||||| |||||||||||| | || || || | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || |
gtttggttgaaacccattctattgactgataatatgagactagcgataagctaattcataaggtcctagtctgtctacttggcattgcattctgattagcaaatccatccattcatgtaacacagGGTAAGAAAGAATGCTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACT
upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 27
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 27
--cacctcacctttgttttctttgtgcttcgttggtcttaatttttaattttaactaagtagttaattagttatgttcatattattccttgtatctttccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
| | | || || | | | | | | | || ||| | | ||| || | ||| ||||||| || | | | | | | ||| ||||| || ||||||||||| |||||||| |||||||| ||| |||| |||||||| |||| |||||||| || ||||||||||||||||| || |
tctattttcacctttcttccagcccacat-gctagatgtgtttgataaatctttttaaacccttgagaagt-gtgttcattttctgcttaacgtgtatgcagAAAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTACGATTTAATTCGGCCAGACGTTGTCCTTGAGCTTGCATGGATGAACAATATGATCGACTMapped 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|58016487|gb|CX703229.1|CX703229EST: CTGGTGACCGTGAACTCTCAGAGGATTTGCTTGTTTACTTTATTGAGCAG GGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATA
genomic: CTGGTGACCGTGAACTCTCAGAGGATTTGCTTGTTTACTTTATTGAGCAGgtctattttc ... atctttccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttaactaagtagttaattagttatgttcatattattccttgtatctttccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
ttccttgtatctttcc CT-rich tract
tagttaattagttatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacctcacctttgttttctttgtgcttcgttggtcttaatttttaattttaactaagtagttaattagttatgttcatattattccttgtatctttccagGGGAAGAAGGAATGTTTTGCATCTTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- cctcacc
- - - - - - - - - tttgtgc