Sequence
atgc intronic sequence ATGC exonic sequence...tgcttcacctcacctttgttttctttgtcatgcttctttggtcttaattttaaattttaacaaaggagttatgttaatattattccctgtatctttccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
Basic information
species | Glycine max |
transcript | GLYMA14G37510.1 |
intron # | 25 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 25
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 27
tgcttcacctcacctttgttttctttgtcatgcttctttggtcttaattttaaattttaacaaaggagttatgt-taatattattccctgtatctttccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
|| | | | | || || ||| | || | ||| | | | ||| ||| || | ||| | || | ||| ||||||||||| ||||| ||||| |||||| | |||||||| | || || | ||||||||||||||||| || ||||||||||| ||| | || |
caattgaagtgaaacaagcaagctcacctgattttttttattatttaggcataatctgtattgcattctgatgagtaacatctataattgtgtattgc-agGGAAAGAAAGAATGCTTTGCTTCTTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 25
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 27
--------tgcttcacctcacctttgttttctttgtcatgcttctttggtcttaattttaaattttaacaaaggagttatgttaatattattccctgtatctttccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
|| || | || | ||| | || || ||| | | |||| | | | | | |||| | | ||| | ||||| | |||| ||||||||||| ||||| ||||| |||||| | |||||||| | || || | ||||||||||||||||| || ||||||||||| ||| | || |
aattgaagtgaaacaagcaagctc-acctgattttttattattatttaggcataatctgtattgcattctgatgagtaacatctataat----tgtgtat---tgcagGGAAAGAAAGAATGCTTTGCTTCTTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 25
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 25
---tgcttcacctcacctttgttttctt-tgtcatgcttctt-tggtcttaattttaaattttaacaaaggagttatgttaatattattccctgta-----------tctt------tccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
|| ||| | | | || || || ||| | | ||| || || | |||| ||||| | ||| | ||| || | | ||| ||||||||||||||||| ||||||||||| | || || || | || ||||||||||| ||||||||||| || ||||||||||| ||| | || |
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatac-agcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 25
lower sequence: GRMZM2G091121_T01 (Zea mays), 3'ss of exon 7
---tgcttcacctcacctttgttttctt-tgtcatgcttctt-tggtcttaattttaaattttaacaaaggagttatgttaatattattccctgta-----------tctt------tccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
|| ||| | | | || || || ||| | | ||| || || | |||| | |||| | ||| | ||| || | | |||| ||||||||||||||||| ||||||||||| | || || || | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || |
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatac-agcaaaaggcgtatgcttgcattctgattagtaaacacatccaatcatatgtaatgcagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 25
lower sequence: GRMZM2G062042_T02 (Zea mays), 3'ss of exon 12
---tgcttcacctcacctttgttttctt-tgtcatgcttctt-tggtcttaattttaaattttaacaaaggagttatgttaatattattccctgta-----------tctt------tccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
|| ||| | | | || || || ||| | | ||| || || | |||| | |||| | ||| | ||| || | | |||| ||||||||||||||||| ||||||||||| | || || || | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || |
gtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatac-agcaaaaggcgtatgcttgcattctgattagtaaacgcatccaatcatatgtaatgcagGGTAAGAAAGAATGTTTTGCTTCTTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 25
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 27
---tgcttcacctcacctttgttttctttgtcatgcttctttggtct-taattttaaattttaacaaaggagttatgttaatattattccctgtatctttccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
||||||| | | || | | |||| | | ||||||| | ||| | |||| || || | | | | | ||| | |||||||| ||||||||||| ||||||||||||||||| ||| |||| |||||||| |||| |||||||| || ||||||||||||||||| || |
tctattttcacctttcttccagcccacatgctagatgtgtttgataaatctttttaaacccttgagaag----tgtgttcattttctgcttaacgtgtatgcagAAAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTACGATTTAATTCGGCCAGACGTTGTCCTTGAGCTTGCATGGATGAACAATATGATCGACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttaaattttaacaaaggagttatgttaatattattccctgtatctttccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
ttccctgtatctttcc CT-rich tract
taaattttaacaaagg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttcacctcacctttgttttctttgtcatgcttctttggtcttaattttaaattttaacaaaggagttatgttaatattattccctgtatctttccagGAGAAGAAAGAATGTTTTGCATCTTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
tgcttca
- - - -cctcacc
- - - - - - - - - - - - - -tcatgct