Sequence
atgc intronic sequence ATGC exonic sequence...aatttctcatataaataggcacaaccttttttcttaacaatattgtttggaattactgtgttgaattttttaattgttgtttctcattctgtttttgtagGCTGTGATCTGTACCGTGGAAATTGGATACATGATCCATTGGGACCGTTATACACAAACAATTCGTGCCCTGTATTGACACAGATGCAGAATTGCCAGGG
Basic information
species | Glycine max |
transcript | GLYMA10G32170.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G32170.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G096169_T02 (Zea mays), 3'ss of exon 2
-----------------------------------------aatttctcatataaatagg-cacaaccttttttctta--acaat-attgtttgga---attactgtgttgaattttttaa-----------ttgttgtttctcattctgtttttgtagG---CTGTGATCTGTACCGTGGAAATTGGATACATGATCCATTGGGACCGTTATACACAAACAATTCGTGCCCTGTATTGACACAGATGCAGAATTGCCAGGG
| || | || ||| || | | | || | | ||| || || || | ||| | | | | ||| | ||| ||||| | || || |||||||| || |||||| | ||| | |||| | | || || ||||||||||||| || |||||| | | ||||||||||||||||||||
gtgagctgttagttcgtttccctgagatttctgcacagcatatttaccagcatgaatgggatgtcattcgtcattgtactgtagtgatttattagattcatcattgtatcagggtagctgagatagcaggagttgatatttgct-ttctgactgtgcagATAATTGTGATCTATATCGTGGAGAGTGGGTTACTGATTCTTCTGGGCCACTATACACAAACAACTCCTGCCCTATCATCACACAGATGCAGAATTGCCA---
upper sequence: GLYMA10G32170.2 (Glycine max), 3'ss of exon 3
lower sequence: AT4G25360.1 (Arabidopsis thaliana), 3'ss of exon 2
aatttctcatataaataggcacaaccttttttcttaacaatat--tgtttggaattactgtgttgaattttttaattgttgtttctcattctgtttttgtagGCTGTGATCTGTACCGTGGAAATTGGATACATGATCCATTGGGACCGTTATACACAAACAATTCGTGCCCTGTATTGACACAGATGCAGAATTGCCAGGG
|| | | | | | | || | | ||||| ||| |||| ||| ||| | || | || || | |||||| |||||| |||| | || | |||| | ||||||| |||||| | ||||| ||||| || |||||||| |||| ||||||||||||||||||||
-gttcttgtcagtttcccttgcttctcatgattctagctgttcgatgttttatatttctgttatgagtttgtcgcttact-caaatctttgattgcttgtagAGTGTGATTTGTATCAAGGTAGTTGGTTTTATGATCCTGGGGGACCTCTCTACACGAACAACTCTTGCCCTGTCCTGACGCAGATGCAGAATTGCCAGGG
upper sequence: GLYMA10G32170.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0022g01830.t01 (Vitis vinifera), 3'ss of exon 1
aatttctcatataaataggcacaaccttttttcttaacaatattgtttg--gaattactgtgt---tgaattttttaat-tgttgtttctcattctgtttttgtagGCTGTGATCTGTACCGTGGAAATTGGATACATGATCCATTGGGACCGTTATACACAAACAATTCGTGCCCTGTATTGACACAGATGCAGAATTGCCAGGG
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-----gtgttgtaagctagaaatattcattctccagattgtattacttcttgatttcttgtttcttttaagctcttaatattctgtttcattggttgttctt-tagGGTGTGATCTGTACCATGGGAGTTGGTTTTATGATTCATCTGGACCATCATACACAAACAACACATGCCCTGTTTTGACACAGATGCAAAATTGCCAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggaattactgtgttgaattttttaattgttgtttctcattctgtttttgtagGCTGTGATCTGTACCGTGGAAATTGGATACATGATCCATTGGGACCGTTATACACAAACAATTCGTGCCCTGTATTGACACAGATGCAGAATTGCCAGGG
ttttaat putative branch site (score: 3)
tttctcattctgtttt putative PPT
ttgaattttttaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttctcatataaataggcacaaccttttttcttaacaatattgtttggaattactgtgttgaattttttaattgttgtttctcattctgtttttgtagGCTGTGATCTGTACCGTGGAAATTGGATACATGATCCATTGGGACCGTTATACACAAACAATTCGTGCCCTGTATTGACACAGATGCAGAATTGCCAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG