Sequence
atgc intronic sequence ATGC exonic sequence...attcattagaaacttagaaactacattctttcagttttaattttgtctgttatttctaagtaatggttcatctgttcaagcttttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
Basic information
species | Glycine max |
transcript | GLYMA08G08730.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g44040.1 (Oryza sativa), 3'ss of exon 6
--------attcattagaaacttagaaactacattctttcagttttaattttgtctgttatttctaagtaatggtt-catctgttcaagcttttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
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aatggtagtttccttataatgtcagtcaccat-tattttcagttgctgtcttttgc-caacttttaggtaagatttgtaacttttccacctgctgtt-------tacagGTCCTGTTTTTAATGTACCACTATTTTGCCGCCACTGAAATATACAATGCAATTCGTGTTTTCATTGCTGCCTATGTCTGGATGACTGGATTTGGGAACT
upper sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 3'ss of exon 6
attcattagaaacttagaaactacattctttcagtttta---attttgtctgttatttctaagtaatggttca-tctgttcaagct-tttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
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-----tagcacttttatattctttctcgctgttgtattatgcaatccttttagtacttgtatgttggctttaagtgtgctataattattttatctgcctttccagGTCTTGTTTCTGATGTACCACTATTTCGCTGCCACAGAAATATACAATGCAATTCGGGTGTTCATTGCTGCCTATGTCTGGATGACTGGATTCGGGAATT
upper sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G458538_T01 (Zea mays), 3'ss of exon 1
attcattagaaacttagaaactacattctttcagttttaattttgtctgttatttctaagtaatggttcatctgttcaagct-tttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
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---------------------------------------------------------------------gagtgtactaattattcgttctgtgtttccagGTCTTATTTCTGATGTACCATTATTTTGCTGCTTCTGAGATATACAATGCAATCCGTGTGTTCATTGCTTGCTATGTCTGGATGACTGGATTTGGGAATT
upper sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G076394_T01 (Zea mays), 3'ss of exon 6
----------------------attcattagaaa-cttagaaactacattctttcagttttaattttgtctgttatttctaagtaatggttcatctgttcaagcttttgttccatctg----------ttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
||| |||| | | | | | | ||| || | | | | | | ||| | | | | |||| || | ||| | | |||||| | ||| | ||||| || ||||| ||||| |||| |||||||||||||| ||||| ||||||||| ||||| ||||||||||||||||| || |
gttggtgatattacatcaatcacttctttagttctccttggcaatgtggttttttagctatctatatcaccggagtttggagaggctcttgattgtgttgaaatgcccaatgcattttaatatgcaattccagGTCTTGTTTCTGATGTACCACTATTTCGCTGCCTCGGAAATATACAATGCAATCCGTGTGTTCATTGCTTGCTATGTCTGGATGACTGGATTTGGGAATT
upper sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------attcattagaaacttagaaactacattctttcagttttaattttgtctgttatttctaagtaatggttcatctgttcaagcttttgttccatctgtt--cagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
| ||| || | | | | || || | | | || || | ||| | | | | | | | || || || | | || ||||| | || ||||||||||| || |||||||| | ||||||||||| ||||| ||| | || |||||||| ||||||||||||||||| ||||||||||
gcaagtttctcttgattattcccaatatgatcatttcctttttctggccggtaact-gtatgg-agctcttactgccgctggctatatacagtctcatgacttactttttaacagGTTTTGTTCTTAATGTATCACTACTTTGCTGCGGCCGAGATATACAACGCAATCCGTATCTTTATTGCTGCTTATGTTTGGATGACTGGTTTTGGAAACT
upper sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G34410.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------------------attcattagaaacttagaaactacat-----tctttcagttttaattttgtctgttatttctaagtaatggtt--catctgttcaagctt----ttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
|| | | | | || || | ||| || | | ||| |||| | | | || | || | | | || || || ||| | ||||| || ||| | ||||||||||| |||||||| | |||||||| |||||||| | |||||||||||||| || || ||||||||||| ||||| ||||
gtaactgattcagtattttctcagtaggtgaccttaacattttcacatgtttttgctcctgcttagcagaatatatctgagttttttggtatcacgtttagatgttttgtgtgtgttgcaactgttttccatgctaatttacagtttttgtgtctttgcagGTTCTATTTCTTATGTATCATTACTTTGCTGCGGCTGAGATATATAATGCAATCAGGGTTTTCATTGCTGCCTACGTCTGGATGACTGGGTTTGGGAACT
upper sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
-attcattagaaacttagaaactac-att-ctttcagttttaattttgtctgtt---attt---ctaagtaatggttca---tctgttcaagcttttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
|| | | | ||| | ||| ||| ||| || | | | || | | |||| || |||| | | | | ||| | || | | | ||||| || ||| ||||||| || || |||||||| ||||||||||||||||||| ||||| || |||||||||||||| ||||||||||||||||||||||
gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgttatttctaagtaatggttcatctgttcaagcttttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
cttttgttccatct CT-rich tract
tatttctaagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcattagaaacttagaaactacattctttcagttttaattttgtctgttatttctaagtaatggttcatctgttcaagcttttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - ctacatt
- - - - - - - - - - - - - - - - - - - - - - gtctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catctgt