Sequence
atgc intronic sequence ATGC exonic sequencegtaattattctacctaacgtatagtcggcacaaatttgtttctctccaattatcaaatttagtatctatcaattcagGAAGAAGGCGGTGAGGGAAGAAACCAGCCAGCTTGGGAGAAGTGCTCAAATGATGGCACAGAAAGACAGGTAGCCAAGCTTATGGAAGAAAATGTTGGTG
Basic information
species | Glycine max |
transcript | GLYMA02G16110.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G16110.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g58330.1 (Oryza sativa), 3'ss of exon 6
-----------------gtaattattctacctaacgtata--gtcggcacaaatttgtttctctccaattatcaaatttagtatctatcaattc--------agGAAGAAGGCGGTGAGGGAAGAAACCAGCCAGCTTGGGAGAAGTGCTCAAATGATGGCACAGAAAGACAGGTAGCCAAGCTTATGGAAGAAAATGTTGGTG
| ||| | | | | | | ||| | || | ||| | || | ||| | | | | ||| ||||| | ||| | || | ||||| | |||||| ||||| |||| ||||||||||||||||||||||| ||||| ||||||||| | | |
atcacaccttcactcaaggaatcaatttgagagtccttttccgtctctgctctttcatatctttt-ggttgttaaactgtatcttgctttattttcgttagGGGGAAGCAAGCGATAGTGGGGGCAACCAACAGATTTGGGAAAAGTGGTCAACGGATGGCACAGAAAGACAGGTAGCGAAGCTGATGGAAGAAGACATCG---
upper sequence: GLYMA02G16110.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g08440.1 (Oryza sativa), 3'ss of exon 5
-------------------------gtaattattctacctaacgtatagtcggcacaaatttgtttctctccaattatcaaatttagtatctatcaattcagGAAGAAG---GCGGTGAGGGAAGAAACCAGCCAGCTTGGGAGAAGTGCTCAAATGATGGCACAGAAAGACAGGTAGCCAAGCTTATGGAAGAAAATGTTGGTG
| || ||| | ||||| | ||| ||| || | |||| | | | || | ||| || | | | || || || || | |||||| ||||| |||| ||||||||||||| |||||||| ||||| ||||||||| | | |
aatcatgttttgtcttgtgccacatttgtttgcatgcccttgtccgtcagtcacacaatatcgttgatctttaa--actaaatcttgcttgaatggcattagGGGGAGGCAAGTGACAGTGGGAGCAAACAACAGATTTGGGAAAAGTGGTCAACCGATGGCACAGAAAAGCAGGTAGCGAAGCTGATGGAAGAAGACATCG---
upper sequence: GLYMA02G16110.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G004356_T01 (Zea mays), 3'ss of exon 6
----------------gtaattattctacctaacgtatagtcggcacaaatttgtttctct-ccaattatcaaatttag---tatctatcaattca------gGAAGAAGGCGGTGAGGGAAGAAACCAGCCAGCTTGGGAGAAGTGCTCAAATGATGGCACAGAAAGACAGGTAGCCAAGCTTATGGAAGAAAATGTTGGTG
|| | | | || | | | | | |||| | ||| | | ||| || | | || | ||| ||||| | | | | || || || |||| |||||||||||| |||| || ||||||||||||||||| || ||||| ||||||||| | |||
ccttgttgtgacttgaaaaaacaatttgactgtccttttccatcccgatatttccgtatctattggtcgttaaaattggatcttcctttggtttcgttagGGGGAAGCAAGTGATAGTGGGAGCAAACAGCAGATTTGGGAGAAGTGGTCAACGGACGGCACAGAAAGACAGGTCGCAAAGCTGATGGAAGAAGACATTG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtcggcacaaatttgtttctctccaattatcaaatttagtatctatcaattcagGAAGAAGGCGGTGAGGGAAGAAACCAGCCAGCTTGGGAGAAGTGCTCAAATGATGGCACAGAAAGACAGGTAGCCAAGCTTATGGAAGAAAATGTTGGTG
aattatcaaatttagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattattctacctaacgtatagtcggcacaaatttgtttctctccaattatcaaatttagtatctatcaattcagGAAGAAGGCGGTGAGGGAAGAAACCAGCCAGCTTGGGAGAAGTGCTCAAATGATGGCACAGAAAGACAGGTAGCCAAGCTTATGGAAGAAAATGTTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA