Sequence
atgc intronic sequence ATGC exonic sequence...gtcctaaaacttgtattgcataatttgaaaaggatattacatatttacatcatattcctatgtgtattatgtaatggttagtttgtaccttcttttgcagGGGAAAGATTAGGAGTCTGGCTTGCTCTCTTCCCAACTGTTTATTTGTCAGCAGGAACTGCAACAGCTTTGATTCTTATAGGAGGGGAGACCATGAAACT
Basic information
species | Glycine max |
transcript | GLYMA15G07440.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07440.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os12g30040.1 (Oryza sativa), 3'ss of exon 2
-gtcctaaaacttgtattgcataatttgaaaaggat-attacatatttacatcatattcctatgtgtattat-gtaatggttagtttgtaccttcttttgcagGGGAAAGATTAGGAGTCTGGCTTGCTCTCTTCCCAACTGTTTATTTGTCAGCAGGAACTGCAACAGCTTTGATTCTTATAGGAGGGGAGACCATGAAACT
| |||| | | ||| || ||| | | | | | || || | ||| | || | | ||| ||| | | ||| || |||| |||| | | ||| | ||||| |||| ||||||||| ||||| |||| ||||| | |||||| || ||||| ||| | ||||||||||||||||| ||
gttgctaagattctctctgc-cgatctgatccatttgactggtgaaatgcaaaatcagcaagaatgtctgattgctcttgttttttttttcattcgtt--cagGAGAAAAACTGGGAATGTGGCTATCTCTTTTCCCAACTATTTATCTGTCGGCAGGCAGTGCAACTGCGTTGATCCTTGTTGGAGGGGAGACCATGAAGCT
upper sequence: GLYMA15G07440.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G125832_T01 (Zea mays), 3'ss of exon 2
----gtcctaaaacttgtattgcataatttgaaaaggatattacatatttacatcatattcctatgtgtattatgtaatggttagtttgtaccttcttttgcagGGGAAAGATTAGGAGTCTGGCTTGCTCTCTTCCCAACTGTTTATTTGTCAGCAGGAACTGCAACAGCTTTGATTCTTATAGGAGGGGAGACCATGAAACT
| | || || | ||| | | | | |||| | ||| | | ||||| || | | | | || | | |||| |||| | | ||| | ||||| ||||| ||||||||| ||||| | || ||||| |||||||| || |||| ||| | ||||||||||||||||| ||
gtggcttttgtctatttcatcg-atagctacacctacaagtcacatgacggaaaaggatttccacca--attatatactcacaaatatatattgttcatc-cagGAGAAAAAATGGGAATGTGGCTGGCTCTTTTCCCAACTATTTATCTCTCGGCAGGCACTGCAACTGCACTGATCCTTGTTGGAGGGGAGACCATGAAGCT
upper sequence: GLYMA15G07440.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g11300.t01 (Vitis vinifera), 3'ss of exon 2
gtcctaaaacttgtattgcataatttgaaaaggatattacatatttacatcatattcctat----gtgtattatgtaatggttagtttgtaccttcttttgcagGGGAAAGATTAGGAGTCTGGCTTGCTCTCTTCCCAACTGTTTATTTGTCAGCAGGAACTGCAACAGCTTTGATTCTTATAGGAGGGGAGACCATGAAACT
| | || | | | |||| ||| || | | || || | | | || |||| || ||| | || ||| |||| |||||| | || || ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||| ||||||||||| |||||||||||
---acatagctgatgct-tttgatttaggggacataggactcgaggaaggtcttttaagattttggcttctgatctaatactttatttatttatttattttcagGAGAAAGACTGGGCGTTTGGCTTGCTCTCTTCCCAACTGTTTATTTGTCAGCAGGAACTGCAACAGCTCTGATTCTCATAGGAGGGGAAACCATGAAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacatcatattcctatgtgtattatgtaatggttagtttgtaccttcttttgcagGGGAAAGATTAGGAGTCTGGCTTGCTCTCTTCCCAACTGTTTATTTGTCAGCAGGAACTGCAACAGCTTTGATTCTTATAGGAGGGGAGACCATGAAACT
tttgtaccttctttt CT-rich tract
tattatgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcctaaaacttgtattgcataatttgaaaaggatattacatatttacatcatattcctatgtgtattatgtaatggttagtttgtaccttcttttgcagGGGAAAGATTAGGAGTCTGGCTTGCTCTCTTCCCAACTGTTTATTTGTCAGCAGGAACTGCAACAGCTTTGATTCTTATAGGAGGGGAGACCATGAAACT
- - - - - - - - tgcataa
- - - - - - - - - - - - - gaaaagga