Sequence
atgc intronic sequence ATGC exonic sequence...ttgccctgtcggagctagttgttttctcttttgggctttatccaatagtatcatctgtgcctcattcacactaaatttgatgcctgtttgatgtatgcagGATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG
Basic information
species | Glycine max |
transcript | GLYMA05G35860.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 4
ttgccctgtcggagctagttgttttctcttttgggctttatccaatagtatcatctgtgcctcattcacactaaatttgatgcctgtttgatgta---tgcagGATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG
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-------------gtaagtggattgcctcgtaaggtttacagtcacaatattgttaatttctt-----catctactgtaacat-tatttgatataaatttcagGACAATCTGGAGGCAAAGGTGGTCGTTGCTGGGTTGTCAACAACCTGTAGCCAGAAAATTCACAATCAATTG
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------ttgccctgtcggagctagttgttttctctt--ttgggctttatccaatagtatcatctgt-gcctc---------attcacactaaattt-----gatgcctgtttgatgtatgcagGATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG
| ||| | | || ||||| ||| | | | | || | ||| | ||| | | || | | || ||| |||| || | || ||||| ||||||||||||||||||||||| || || ||||||| |||||||| ||||| || |||||||| ||||| |||
gtacagcagacatgtttcaacatatcattgtgttcgtgttatttgttatctatcgatggaagtatagtccatatggccttcttttgtcttgaagtatctactgactctacatttttcctaatctgtcttcaatgtacacagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------------------------ttgccctgtcggagctagttgttttctcttttgggctttatccaatagtatcatct-gtgcctcattcacactaaatttgatgcc-tgtttgatgtatgcagGATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG
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gcatgcatttatttttctaccatttcattttgctttacagaaagaactagactccctcttatacacatttttatgtgatggaggcatttatttgatattttttcatcatgtcttcctt-cattgacttttatggtatgtctaatggtcacagGATGATGTTGATATTAAGATTGTTGTGGCTGATTTGTCAACAACTTGCAGTCAAAAAGTTCATAATCAGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtatcatctgtgcctcattcacactaaatttgatgcctgtttgatgtatgcagGATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG
taaatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgccctgtcggagctagttgttttctcttttgggctttatccaatagtatcatctgtgcctcattcacactaaatttgatgcctgtttgatgtatgcagGATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG
- -ccctgtc
- - - - - - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - atctgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgcc