Sequence
atgc intronic sequence ATGC exonic sequencegtgagggaattttgacaacaaactagaaaagactgaataccgtttagaaaatatatgaatctctttgttggagcacatgtttgtatacaatgttcattgctcatctttctttcttctgccgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
Basic information
species | Glycine max |
transcript | GLYMA11G02520.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 11
lower sequence: AC209208.3_FGT001 (Zea mays), 3'ss of exon 8
gtgagggaattttgacaacaaactagaaaagactgaataccgtttagaaaatatatgaatctctttgttggagcacatgtttgtatacaatgttcattgctcatctttctttcttctgccgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
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-------------------------ttatagacatagtactaatgctgagttatctt--ttgttttgtaagatactgttgtccttcaaaatgtaacatg-tcactttacttttttac----ttctccaa--tagATTGCCGCAATGTTTAAGATAGGAAACAGTAAGGAGCTTCCACCAATACCGGATCACCTCTCAGAAGAAGGGAAAGACTTCATAAGACAGTGCTTGCAAC
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagggaattttgacaacaaactagaaaagactgaataccgtttagaaaatatatgaatctctttgttggagcacatgtttgtatacaatgttcattgctcatctttctttcttctgccgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
||| ||| |||| | | | ||||| | | ||| | |||| || | | ||| |||| |||| | |||||||| |||||||||||||||||||| ||||| | || || |||||| |||| ||||| || || |||||| | || ||||| | ||||
-----------------------------------------gttagtaaatcatataagtac-----tcaacaaacatgagattgaatgatgcgactcttccatccttatgtattcgagttctttaca-----gGTTCCTGCTATGTTCAAGATTGGAAACAGCAAGGAGCTTCCAGATATCCCTGATCATTTATCTGAAGAGGGGAAGGATTTTGTAAGAAAATGCCTACAAA
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 10
--------------gtgagggaatt-ttgacaacaaactagaaaagactga-ataccgtttagaaaatatatgaatctctttgttggagca----catgtttg-tatac---aatgttcattgctcatctttctttcttctgccgtactacatgtt---agGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
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gtaggcattcaaaattgtgttttttattttccaaatattgcacttaatcaatgtctcttcttgtaactatattcatatctcagtgagagcattgacatgctagacatactggagtgtgcttgacccattttttctcttacattctaccttcttctccaaagGTTGCTGCTATGTTTAAGATTGGTAACAGTAAAGAACTTCCCACAATACCTGATCATCTCTCAGAGGAGGGCAAGGACTTTGTAAGGCAGTGCTTGCAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtatacaatgttcattgctcatctttctttcttctgccgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
tctttctttcttctgc CT-rich tract
atacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagggaattttgacaacaaactagaaaagactgaataccgtttagaaaatatatgaatctctttgttggagcacatgtttgtatacaatgttcattgctcatctttctttcttctgccgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA